Typing multiple words will show all the results where any of the words matches!
Use double quotes (") to group words and narrow down the results:
searching for ocean atlas will give you all the results for ocean AND all the results for atlas
I made an atlas to use at school.
will match once for atlas
I love the ocean.
will match once for ocean
I made an atlas that is not containing the ocean.
will match once for atlas
will match a second time for ocean
I made a new ocean atlas.
will match once for atlas
will match a second time for ocean
searching for "ocean atlas" will only give you the results for the 2 adjacent words ocean and atlas
I made an atlas to use at school.
will NOT match, ocean atlas not found
I love the ocean.
will NOT match, ocean atlas not found
I made an atlas that is not containing the ocean.
will NOT match, the 2 adjacent words ocean atlas not found
I made a new ocean atlas.
will match once, the 2 adjacent words ocean atlas found once
How to use wildcards?
Wildcards '?' (single character) and '*' (multiple characters) are accepted.
bird will only match the word 'bird'
bir? will match the words 'bir' and 'bird'
bir* will match the words 'bir', 'bird' and 'birds'
*bird* will match the words 'bird', 'birds', 'seabird' and 'seabirds'
How to use the filters?
you can search with or without filters, filters are here to narrow down your search results using predefined lists
using filters
multiple selects within one filter will be used as OR statements
examples:
selecting both Belgium and France
will show all records where Belgium has been selected and
all records where France has been selected
different filters will be used with AND statement in search
examples:
selecting both Belgium as country and French as language
will show all records where Belgium has been selected as country and
where French has been selected as language
all combination are possible
examples:
selecting both Belgium and France as country
and French and Dutch as language
will show all records where Belgium has been selected as country and
where French or Dutch has been selected as language
and all records where France has been selected as country and
where French or Dutch has been selected as language
without filters
when searching without filters the different words will be searched in all fields that are not a filter
examples:
selecting Belgium as country without the use of a searchword
or selecting no country in the filters and using Belgium as a searchword
will give two different results.
special filters
clicking on the button My Records will show only your records
Type something in the input field to search for a specific text inside all entries of the catalogue.
Typing multiple words will show all the results where any of the words matches!
Use double quotes (") to group words and narrow down the results (see help for some examples):
searching for ocean atlas will give you all the results for ocean AND all the results for atlas
searching for "ocean atlas" will only give you the results for the 2 adjacent words ocean and atlas
you were looking for : Types : Software (ocean related)
A challenge on the mapping of satellite altimeter sea surface height data organised by MEOM@IGE, Ocean-Next and CLS.
This repository contains codes and sample notebooks for downloading and processing the SSH mapping data challenge.
The goal is to investigate how to best reconstruct sequences of Sea Surface Height (SSH) maps from partial satellite altimetry observations. This data challenge follows an Observation System Simulation Experiment framework: "Real" full SSH are from a numerical simulation with a realistic, high-resolution ocean circulation model: the reference simulation. Satellite observations are simulated by sampling the reference simulation based on realistic orbits of past, existing or future altimetry satellites. A baseline reconstruction method is provided (see below) and the practical goal of the challenge is to beat this baseline according to scores also described below and in Jupyter notebooks.
Maxime Ballarotta, Emmanuel Cosme, & Aurélie Albert. (2020, September 23). ocean-data-challenges/2020a_SSH_mapping_NATL60: Material for SSH mapping data challenge (Version v1). Zenodo. http://doi.org/10.5281/zenodo.4045400
Abstract
A challenge on the mapping of satellite altimeter sea surface height data organised by MEOM@IGE, Ocean-Next and CLS.
This repository contains codes and sample notebooks for downloading and processing the SSH mapping data challenge.
The goal is to investigate how to best reconstruct sequences of Sea Surface Height (SSH) maps from partial satellite altimetry observations. This data challenge follows an Observation System Simulation Experiment framework: "Real" full SSH are from a numerical simulation with a realistic, high-resolution ocean circulation model: the reference simulation. Satellite observations are simulated by sampling the reference simulation based on realistic orbits of past, existing or future altimetry satellites. A baseline reconstruction method is provided (see below) and the practical goal of the challenge is to beat this baseline according to scores also described below and in Jupyter notebooks.
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Types: Software (ocean related)
Languages: English
Countries: France
Host Countries: France
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: Satellite, oceanography, python, sea surface height
Last updated: 05/02/2022
ADCIRC Model (ODIS id: 1787)
https://adcirc.org/
ADCIRC is a system of computer programs for solving time dependent, free surface circulation and tra ...
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ADCIRC Model
ADCIRC is a system of computer programs for solving time dependent, free surface circulation and transport problems in two and three dimensions. These programs utilize the finite element method in space allowing the use of highly flexible, unstructured grids.
Typical ADCIRC applications have included prediction of storm surge and flooding,
modeling tides and wind driven circulation, larval transport studies, near shore marine operations, and dredging feasibility and material disposal studies.
ADCIRC is a system of computer programs for solving time dependent, free surface circulation and transport problems in two and three dimensions. These programs utilize the finite element method in space allowing the use of highly flexible, unstructured grids.
Typical ADCIRC applications have included prediction of storm surge and flooding,
modeling tides and wind driven circulation, larval transport studies, near shore marine operations, and dredging feasibility and material disposal studies.
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Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: dredging feasibility, larvae, larval transport, material disposal studies, near shore marine operations, wind driven circulation
Last updated: 18/01/2022
Tools for setting up, running and processing data from a Seaglider fitted with a Nortek 1MHz.
In addition to the other requirements, the environment uses the Gibbs Seawater Python wrapper from https://github.com/TEOS-10/GSW-Python
Tools for setting up, running and processing data from a Seaglider fitted with a Nortek 1MHz.
In addition to the other requirements, the environment uses the Gibbs Seawater Python wrapper from https://github.com/TEOS-10/GSW-Python
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Types: Software (ocean related)
Languages: English
Countries: United Kingdom
Host Countries: United Kingdom
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: ADCP, Glider, data processing, oceanography, python
Last updated: 01/05/2021
Advanced Weather Interactive Processing System - UNIDATA at University Corporation for Atmospheric Research (ODIS id: 2316)
Advanced Weather Interactive Processing System - UNIDATA at University Corporation for Atmospheric Research
AWIPS (Advanced Weather Interactive Processing System) is a meteorological display and analysis package originally developed by the National Weather Service and Raytheon. Here at Unidata, we provide a slightly modified version, which is tailored for education use for our primary user base of US Academic institutions, their faculty, and students. AWIPS takes a unified approach to data ingest, and most data types follow a path through the system starting with an LDM client requesting data from the Unidata IDD. These data files are then decoded and stored as HDF5 and Postgres metadata by EDEX.
Unidata supports two visualization frameworks for rendering AWIPS data: CAVE (a desktop Java application), and the Python Data Access Framework (python-awips).
Advanced Weather Interactive Processing System - UNIDATA at University Corporation for Atmospheric Research (ODIS id 2316)
Advanced Weather Interactive Processing System - UNIDATA at University Corporation for Atmospheric Research
Original (non-English) name
Acronym
AWIPS-II - UNIDATA-UCAR
Citation
Abstract
AWIPS (Advanced Weather Interactive Processing System) is a meteorological display and analysis package originally developed by the National Weather Service and Raytheon. Here at Unidata, we provide a slightly modified version, which is tailored for education use for our primary user base of US Academic institutions, their faculty, and students. AWIPS takes a unified approach to data ingest, and most data types follow a path through the system starting with an LDM client requesting data from the Unidata IDD. These data files are then decoded and stored as HDF5 and Postgres metadata by EDEX.
Unidata supports two visualization frameworks for rendering AWIPS data: CAVE (a desktop Java application), and the Python Data Access Framework (python-awips).
Types: Education and training materials (related to oceans), Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: no searegion defined
Themes: DS03 Physical oceanography
Keywords: safety
Last updated: 25/09/2021
AIBECS (for Algebraic Implicit Biogeochemical Elemental Cycling System, pronounced like the cool ibex) is a Julia package that provides ocean biogeochemistry modellers with an easy-to-use interface for creating and running models of the ocean system.
AIBECS is a system because it allows you to choose some biogeochemical tracers, define their interactions, select an ocean circulation and Voilà! — your model is ready to run.
Benoit Pasquier, & Julia TagBot. (2020, November 20). JuliaOcean/AIBECS.jl: v0.8.1 (Version v0.8.1). Zenodo. http://doi.org/10.5281/zenodo.4282691
Abstract
AIBECS (for Algebraic Implicit Biogeochemical Elemental Cycling System, pronounced like the cool ibex) is a Julia package that provides ocean biogeochemistry modellers with an easy-to-use interface for creating and running models of the ocean system.
AIBECS is a system because it allows you to choose some biogeochemical tracers, define their interactions, select an ocean circulation and Voilà! — your model is ready to run.
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Types: Software (ocean related)
Languages: English
Countries: Australia
Host Countries: Australia
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: Julia, Modelling, biogeochemistry, fluxes, ocean circulation, oceanography, oceans, transport
Last updated: 30/04/2021
The AODN open geospatial portal is a Grails application for discovering, subsetting, and downloading geospatial data.
The application is a stateless front end to other servers:
GeoNetwork metadata catalog
GeoServer data server (WMS and WFS and our WPS subsetting and aggregation services
THREDDS Gridded (ncWMS files) data server with embedded ncWMS (http://www.resc.rdg.ac.uk/trac/ncWMS/) web map server
You can view the portal in action at AODN Portal, which always runs the latest version of the code.
AODN Open Geospatial Portal repository (ODIS id 1779)
The AODN open geospatial portal is a Grails application for discovering, subsetting, and downloading geospatial data.
The application is a stateless front end to other servers:
GeoNetwork metadata catalog
GeoServer data server (WMS and WFS and our WPS subsetting and aggregation services
THREDDS Gridded (ncWMS files) data server with embedded ncWMS (http://www.resc.rdg.ac.uk/trac/ncWMS/) web map server
You can view the portal in action at AODN Portal, which always runs the latest version of the code.
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Types: Software (ocean related)
Languages: English
Countries: Australia
Host Countries: Australia
Sea Region: World
Themes: DS01 Biological oceanography, DS02 Chemical oceanography, DS03 Physical oceanography, DS04 Marine geology, DS05 Atmosphere
Keywords: Geospatial data, Integrated Marine Observing System, data access, data discovey, geonetwork, geoserver
Last updated: 02/05/2021
Types: Software (ocean related)
Languages: English
Countries: United Kingdom
Host Countries: United Kingdom
Sea Region: Celtic Sea, English Channel, North Atlantic Ocean, North Sea
Themes: DS06 Cross-discipline
Keywords: API, Coastal zone, data access
Last updated: 26/04/2021
API - Earth System Grid Federation (ODIS id: 2838)
The ESGF search service exposes a RESTful URL that can be used by clients (browsers and desktop clients) to query the contents of the underlying search index, and return results matching the given constraints. Because of the distributed capabilities of the ESGF search, the URL at any Index Node can be used to query that Node only, or all Nodes in the ESGF system.
The ESGF search service exposes a RESTful URL that can be used by clients (browsers and desktop clients) to query the contents of the underlying search index, and return results matching the given constraints. Because of the distributed capabilities of the ESGF search, the URL at any Index Node can be used to query that Node only, or all Nodes in the ESGF system.
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Types: Software (ocean related)
Languages: English
Countries: REGIONAL
Host Countries: United States
Sea Region: no searegion defined
Themes: DS05 Atmosphere
Keywords: API, climate data, earth science, observation data
Last updated: 04/11/2021
API - Global Learning and Observations to Benefit the Environment program (ODIS id: 2827)
Types: Data systems/portals (allowing downloading of data sets), Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: United States
Sea Region: no searegion defined
Themes: DS01 Biological oceanography, DS02 Chemical oceanography, DS03 Physical oceanography, DS10 Environment
Keywords: collaboration, earth science, education, scientific knowledge
Last updated: 04/11/2021
Application for Extracting and Exploring Analysis Ready Samples - NASA's Land Processes Distributed Active Archive Center
The Application for Extracting and Exploring Analysis Ready Samples (AρρEEARS) offers a simple and efficient way to access and transform geospatial data from a variety of federal data archives. AρρEEARS enables users to subset geospatial datasets using spatial, temporal, and band/layer parameters. Two types of sample requests are available: point samples for geographic coordinates and area samples for spatial areas via vector polygons. Sample requests submitted to AρρEEARS provide users not only with data values, but also associated quality data values. Interactive visualizations with summary statistics are provided for each sample within the application, which allow users to preview and interact with their samples before downloading their data. Get started with a sample request using the Extract option above, or visit the Help page to learn more.
Application for Extracting and Exploring Analysis Ready Samples - NASA's Land Processes Distributed Active Archive Center (ODIS id 1863)
Application for Extracting and Exploring Analysis Ready Samples - NASA's Land Processes Distributed Active Archive Center
Original (non-English) name
Acronym
AppEEARS - LP DAAC
Citation
Abstract
The Application for Extracting and Exploring Analysis Ready Samples (AρρEEARS) offers a simple and efficient way to access and transform geospatial data from a variety of federal data archives. AρρEEARS enables users to subset geospatial datasets using spatial, temporal, and band/layer parameters. Two types of sample requests are available: point samples for geographic coordinates and area samples for spatial areas via vector polygons. Sample requests submitted to AρρEEARS provide users not only with data values, but also associated quality data values. Interactive visualizations with summary statistics are provided for each sample within the application, which allow users to preview and interact with their samples before downloading their data. Get started with a sample request using the Extract option above, or visit the Help page to learn more.
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Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS06 Cross-discipline
Keywords: Geospatial data, data processing
Last updated: 21/04/2021
Apps EyeOnWater - Citizens’ Observatory for Coast and Ocean Optical Monitoring (ODIS id: 2424)
https://www.eyeonwater.org/apps
The EyeOnWater concept consists of an app and a website. The app allows you as user to make a contri ...
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Apps EyeOnWater - Citizens’ Observatory for Coast and Ocean Optical Monitoring
The EyeOnWater concept consists of an app and a website. The app allows you as user to make a contribution to science and supply information about the water near your location or elsewhere. All your measurements will be visible via the EyeOnWater website.
What is it you measure? Water colour is an indication for life in the water. Scientists have been measuring this in marine waters via the Forel-Ule scale for more than 200 years. Your measurements are invaluable to scientists and will contribute to this long-term observation of water colour and continue the timeseries.
The scientific background of the EyeOnWater concept has been developed by NIOZ, with partner Veerder responsible for the design and MARIS for the technical development. Other partners in the EU funded project Citclops have also contributed to the water colour app. For more information about the Citclops project please visit: www.citclops.eu
Apps EyeOnWater - Citizens’ Observatory for Coast and Ocean Optical Monitoring (ODIS id 2424)
Apps EyeOnWater - Citizens’ Observatory for Coast and Ocean Optical Monitoring
Original (non-English) name
Acronym
Apps EyeOnWater - Citclops
Citation
Abstract
The EyeOnWater concept consists of an app and a website. The app allows you as user to make a contribution to science and supply information about the water near your location or elsewhere. All your measurements will be visible via the EyeOnWater website.
What is it you measure? Water colour is an indication for life in the water. Scientists have been measuring this in marine waters via the Forel-Ule scale for more than 200 years. Your measurements are invaluable to scientists and will contribute to this long-term observation of water colour and continue the timeseries.
The scientific background of the EyeOnWater concept has been developed by NIOZ, with partner Veerder responsible for the design and MARIS for the technical development. Other partners in the EU funded project Citclops have also contributed to the water colour app. For more information about the Citclops project please visit: www.citclops.eu
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Types: Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: Spain, REGIONAL
Sea Region: World
Themes: DS01 Biological oceanography, DS10 Environment
Keywords: Public participation, monitoring activities, water quality
Last updated: 18/09/2021
The HELCOM' ArcGIS REST API, short for Representational State Transfer, provides a simple, open web interface to ArcGIS. A major portion of the API, described in this section of the help, allows access to services hosted by ArcGIS Server.
All resources and operations exposed by the REST API are accessible through a hierarchy of endpoints or Uniform Resource Locators (URLs) for each GIS service published with ArcGIS Server. When using the ArcGIS Services portion of the REST API, you typically start from a well-known endpoint, which represents the server catalog. See the Resource hierarchy to learn about how the services in the REST API fit together under the catalog.
The HELCOM' ArcGIS REST API, short for Representational State Transfer, provides a simple, open web interface to ArcGIS. A major portion of the API, described in this section of the help, allows access to services hosted by ArcGIS Server.
All resources and operations exposed by the REST API are accessible through a hierarchy of endpoints or Uniform Resource Locators (URLs) for each GIS service published with ArcGIS Server. When using the ArcGIS Services portion of the REST API, you typically start from a well-known endpoint, which represents the server catalog. See the Resource hierarchy to learn about how the services in the REST API fit together under the catalog.
MATLAB code to build a schematic diagram of Arctic Ocean freshwater storage and fluxes. Data taken from Jahn & Laiho (2020) and Haine et al. (2015), plus updates.
Run MATLAB codes as follows:
Run flux_update.m to make a diagnostic figure of freshwater fluxes from Haine et al. (2015), plus recent public data updates. This builds the .mat file used in the main script.
Run make_LFC_map.m to make the liquid freshwater content basemap adapted from Haine et al. (2015) Fig. 6.
Run schematic_figure.m to read Alex Jahn's CESM data from Jahn & Laiho (2020) and make the subplots for the schematic figure (six .eps files).
Use Mac keynote to build schematic.key and hence schematic.pdf using the component figure files.
The MATLAB code uses Gibbs-Seawater (GSW) Oceanographic Toolbox functions.
A commentary article entitled Arctic Ocean Freshening Linked to Anthropogenic Climate Change: All Hands on Deck has been submitted to GRL.
MATLAB code to build a schematic diagram of Arctic Ocean freshwater storage and fluxes. Data taken from Jahn & Laiho (2020) and Haine et al. (2015), plus updates.
Run MATLAB codes as follows:
Run flux_update.m to make a diagnostic figure of freshwater fluxes from Haine et al. (2015), plus recent public data updates. This builds the .mat file used in the main script.
Run make_LFC_map.m to make the liquid freshwater content basemap adapted from Haine et al. (2015) Fig. 6.
Run schematic_figure.m to read Alex Jahn's CESM data from Jahn & Laiho (2020) and make the subplots for the schematic figure (six .eps files).
Use Mac keynote to build schematic.key and hence schematic.pdf using the component figure files.
The MATLAB code uses Gibbs-Seawater (GSW) Oceanographic Toolbox functions.
A commentary article entitled Arctic Ocean Freshening Linked to Anthropogenic Climate Change: All Hands on Deck has been submitted to GRL.
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Types
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Types: Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: United States
Sea Region: Arctic Ocean
Themes: DS03 Physical oceanography
Keywords: Arctic research, freshwater, matlab, oceanography, oceans
Last updated: 01/05/2021
Code library to support processing and quality control of BGC Argo floats.
Welcome to MBARI's ARGO_PROCESSING code repository. The repo has two main subdirectories, one containing our MATLAB code base (MFILES), and one containing supporting reference data (DATA). Within MFILES/FLOATS are a number of functions and data parsers that are internal to processing at MBARI, and that also support the Graphical User Interfaces (GUIs) we developed for quality control of BGC data.
The /MFILES/GUIS/SAGE_O2Argo/ directory holds code used to run our oxygen-specific GUI, SAGE-O2Argo (SOCCOM Assessment and Graphical Evaluation for Oxygen, for use with Argo floats). This version of SAGEO2 was developed specifically for use with Argo netCDF files and assists the user in deriving optode gain correction factors by comparing float oxygen with specific reference datasets (ie WOA2013, and NCEP reanalysis). The software accesses files and routines within other subdirectories of the repository, so be sure to clone the entire repo before launching the GUI software. Additionally, a SAGE-O2Argo user manual with detailed install inscructions can be found within MFILES/GUIS/SAGE_O2Argo/.
The version of SAGEO2 that utilizes .msg files (rather than Argo *.nc files) may be added to this repository in the future under /MFILES/GUIS/SAGE_O2/.
The SAGE GUI (used for correcting pH and NO3- data), has been added under /MFILES/GUIS/SAGE/. This GUI can be used with SOCCOM or NON-SOCCOM floats, although input data files must be in standard SOCCOM ODV-ascii format. A complete user-manual has not yet been developed, but a short readme exists explaining setup instructions under /MFILES/GUIS/SAGE/.
Please note that this code is provided as-is and is subject to periodic updates and improvements. If you are interested in contributing to this repository, please contact Tanya Maurer at tmaurer@mbari.org.
ARGO_PROCESSING package - SOCCOM BGC Argo (ODIS id 1840)
Code library to support processing and quality control of BGC Argo floats.
Welcome to MBARI's ARGO_PROCESSING code repository. The repo has two main subdirectories, one containing our MATLAB code base (MFILES), and one containing supporting reference data (DATA). Within MFILES/FLOATS are a number of functions and data parsers that are internal to processing at MBARI, and that also support the Graphical User Interfaces (GUIs) we developed for quality control of BGC data.
The /MFILES/GUIS/SAGE_O2Argo/ directory holds code used to run our oxygen-specific GUI, SAGE-O2Argo (SOCCOM Assessment and Graphical Evaluation for Oxygen, for use with Argo floats). This version of SAGEO2 was developed specifically for use with Argo netCDF files and assists the user in deriving optode gain correction factors by comparing float oxygen with specific reference datasets (ie WOA2013, and NCEP reanalysis). The software accesses files and routines within other subdirectories of the repository, so be sure to clone the entire repo before launching the GUI software. Additionally, a SAGE-O2Argo user manual with detailed install inscructions can be found within MFILES/GUIS/SAGE_O2Argo/.
The version of SAGEO2 that utilizes .msg files (rather than Argo *.nc files) may be added to this repository in the future under /MFILES/GUIS/SAGE_O2/.
The SAGE GUI (used for correcting pH and NO3- data), has been added under /MFILES/GUIS/SAGE/. This GUI can be used with SOCCOM or NON-SOCCOM floats, although input data files must be in standard SOCCOM ODV-ascii format. A complete user-manual has not yet been developed, but a short readme exists explaining setup instructions under /MFILES/GUIS/SAGE/.
Please note that this code is provided as-is and is subject to periodic updates and improvements. If you are interested in contributing to this repository, please contact Tanya Maurer at tmaurer@mbari.org.
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Types: Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: United States
Sea Region: World
Themes: DS02 Chemical oceanography, DS03 Physical oceanography
Keywords: Argo, biogeochemistry, data processing, matlab, r-package
Last updated: 15/05/2021
This software is a python implementation of the "OWC" salinity calibration method used in Argo floats Delayed Mode Quality Control.
This software is in very active development and its usage may change any time.
This software is a python implementation of the "OWC" salinity calibration method used in Argo floats Delayed Mode Quality Control.
This software is in very active development and its usage may change any time.
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Types: Software (ocean related)
Languages: English
Countries: REGIONAL
Host Countries: United Kingdom
Sea Region: World
Themes: DS02 Chemical oceanography, DS03 Physical oceanography
Keywords: Argo, oceanography, python, quality control
Last updated: 01/05/2021
Argo is a real-time global ocean in situ observing system. It provides thousands of highly
accurate ocean measurements every day. The Argo dataset has now accumulated more than 2.3 million vertical ocean profiles and accessing it for scientific analysis remains a challenge.
The Argo expert community, focused on delivering a curated dataset of the best scientific
quality possible, has never provided its user base with a Python software package to easily access and manipulate Argo measurements: the argopy software aims to fill this gap. The argopy software can be used to easily fetch and manipulate measurements from Argo floats.
It is dedicated to scientists without knowledge of the Argo data management system but is also designed to accommodate expert requirements.
Maze et al., (2020). argopy: A Python library for Argo ocean data analysis. Journal of Open Source Software, 5(53), 2425, https://doi.org/10.21105/joss.02425
Abstract
Argo is a real-time global ocean in situ observing system. It provides thousands of highly
accurate ocean measurements every day. The Argo dataset has now accumulated more than 2.3 million vertical ocean profiles and accessing it for scientific analysis remains a challenge.
The Argo expert community, focused on delivering a curated dataset of the best scientific
quality possible, has never provided its user base with a Python software package to easily access and manipulate Argo measurements: the argopy software aims to fill this gap. The argopy software can be used to easily fetch and manipulate measurements from Argo floats.
It is dedicated to scientists without knowledge of the Argo data management system but is also designed to accommodate expert requirements.
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Types: Software (ocean related)
Languages: English
Countries: France
Host Countries: France
Sea Region: World
Themes: DS02 Chemical oceanography, DS03 Physical oceanography
Keywords: Argo, oceanography, python
Last updated: 30/04/2021
This package contains methods to calculate atmospheric quantities (on the Earth) that are directly derivative (i.e. not requiring time integration or modeling) from standard state variables. The AtmQty class that manages these quantities and the AtmConst class of atmosphere-related constants are defined in this package. The current version is 0.2.0.2.
Although I've used these routines in my own research, I cannot guarantee that they will work for your purposes. More disclaimers and other fine print are below. This package has not been developed/maintained since 2004. It's published for historical and educational purposes only. I would not recommend you to use it for your own work as is.
There are three ways of using this package: (1) for its central definition of atmospheric constants, (2) as a suite of procedures to calculate selected atmospheric quantities using Numeric arrays as input, and (3) for the AtmQty object, which manages the calculation of a self-consistent set of atmospheric quantities.
Here we provide a brief summary of using the package. Further description is in the reference manual.
Atmospheric Constants: The AtmConst class provides a comprehensive (someday) and consistent definition of important atmospheric constants. Constants are defined both as class attributes and also as instance attributes whose initial values are set by the class attribute version. This "double-definition" enables one to make local changes to local instances of the AtmConst class without having the changes propagate to all subsequent references. At the same time, you can change the value in all subsequent references, if you wish, by altering and using the class attribute definition.
This package contains methods to calculate atmospheric quantities (on the Earth) that are directly derivative (i.e. not requiring time integration or modeling) from standard state variables. The AtmQty class that manages these quantities and the AtmConst class of atmosphere-related constants are defined in this package. The current version is 0.2.0.2.
Although I've used these routines in my own research, I cannot guarantee that they will work for your purposes. More disclaimers and other fine print are below. This package has not been developed/maintained since 2004. It's published for historical and educational purposes only. I would not recommend you to use it for your own work as is.
There are three ways of using this package: (1) for its central definition of atmospheric constants, (2) as a suite of procedures to calculate selected atmospheric quantities using Numeric arrays as input, and (3) for the AtmQty object, which manages the calculation of a self-consistent set of atmospheric quantities.
Here we provide a brief summary of using the package. Further description is in the reference manual.
Atmospheric Constants: The AtmConst class provides a comprehensive (someday) and consistent definition of important atmospheric constants. Constants are defined both as class attributes and also as instance attributes whose initial values are set by the class attribute version. This "double-definition" enables one to make local changes to local instances of the AtmConst class without having the changes propagate to all subsequent references. At the same time, you can change the value in all subsequent references, if you wish, by altering and using the class attribute definition.
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Types
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Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS05 Atmosphere
Keywords: atmospheric quantities, python
Last updated: 15/05/2021
AuScope Virtual Rsearch Environment Store (ODIS id: 1802)
http://avre.auscope.org/store
Welcome to the AuScope Virtual Research Environment (AVRE), Australia’s home of geoscience data an ...
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AuScope Virtual Rsearch Environment Store
Welcome to the AuScope Virtual Research Environment (AVRE), Australia’s home of geoscience data and tools that help scientists place the next pieces of our giant, continental puzzle.
The AVRE is a rich ecosystem of Findable, Accessible, Interoperable and Reusable (FAIR) data and tools contributed to by a diverse range of Australian research organisations, government geological surveys and the international community.
Over the last decade we have developed the AVRE architecture using open geospatial data and analytics web services and open data principles, gathering diverse data types – geochemical to geophysical, and built a suite of data visualisation and analytics tools.
We continue to expand the range of data and tools available via the AVRE to support future research, including new and historical datasets. This is performed in multiple projects across the contributing organisations co-operating as part of the AVRE.
AuScope Virtual Rsearch Environment Store (ODIS id 1802)
Welcome to the AuScope Virtual Research Environment (AVRE), Australia’s home of geoscience data and tools that help scientists place the next pieces of our giant, continental puzzle.
The AVRE is a rich ecosystem of Findable, Accessible, Interoperable and Reusable (FAIR) data and tools contributed to by a diverse range of Australian research organisations, government geological surveys and the international community.
Over the last decade we have developed the AVRE architecture using open geospatial data and analytics web services and open data principles, gathering diverse data types – geochemical to geophysical, and built a suite of data visualisation and analytics tools.
We continue to expand the range of data and tools available via the AVRE to support future research, including new and historical datasets. This is performed in multiple projects across the contributing organisations co-operating as part of the AVRE.
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Types
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Types: Software (ocean related)
Languages: English
Countries: Australia
Host Countries: Australia
Sea Region: World
Themes: DS04 Marine geology, DS08 Terrestrial
Keywords: FAIRness, Virtual Research Environment, data access, data analysis, data and tools, data visualization, geoscience data, historical datasets, open access, open data
Last updated: 08/05/2021
https://github.com/IQuOD/AutoQC
Recent studies suggest that changes to global climate as have been seen at the Earth's land and ocea ...
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AutoQC package - International Quality Controlled Ocean Database
Recent studies suggest that changes to global climate as have been seen at the Earth's land and ocean surface are also making their way into the deep ocean, which is the largest active storage system for heat and carbon available on the timescale of a human lifetime. Historical measurements of subsurface ocean temperature are essential to the scientific research investigating the changes in the amount of heat stored in the ocean and also to other climate research activities such as combining observations with numerical models to provide estimates of the global ocean's and Earth's climate state in the past and predictions for the future. Unfortunately, as with all observations, these measurements contain errors and biases that must be identified to prevent a negative impact on the applications and investigations that rely on them. Various groups from around the world have developed quality control tests to perform this important task. However, this has led to duplication of effort, code that is not easily available to other researchers and the introduction of climate model differences solely due to the varying performance of these software systems whose nuances relative to one another are poorly known.
Recently, an international team of researchers has decided to work together to break down the barriers between the various groups and countries through the formation of the IQuOD (International Quality Controlled Dataset) initiative. One of the key aims is to intercompare the performance of the various automatic quality control tests that are presently being run to determine a best performing set. This work has started. However, it currently involves individuals running test datasets through their own systems and is being confounded by complications associated with the differences in the file formats and systems that are in use in the various labs and countries.
The IQuOD proposal is to set up an open quality control benchmarking system. Work will begin by implementing a battery of simple tests to run on some test data, and producing summary statistics and visualizations of the results. Later goals include helping researchers either wrap their existing C, Fortran and MATLAB test functions in Python for use in this test suite, or re-implementing those tests in native Python.
AutoQC package - International Quality Controlled Ocean Database (ODIS id 1897)
AutoQC package - International Quality Controlled Ocean Database
Original (non-English) name
Acronym
AutoQC - IQuOD
Citation
Abstract
Recent studies suggest that changes to global climate as have been seen at the Earth's land and ocean surface are also making their way into the deep ocean, which is the largest active storage system for heat and carbon available on the timescale of a human lifetime. Historical measurements of subsurface ocean temperature are essential to the scientific research investigating the changes in the amount of heat stored in the ocean and also to other climate research activities such as combining observations with numerical models to provide estimates of the global ocean's and Earth's climate state in the past and predictions for the future. Unfortunately, as with all observations, these measurements contain errors and biases that must be identified to prevent a negative impact on the applications and investigations that rely on them. Various groups from around the world have developed quality control tests to perform this important task. However, this has led to duplication of effort, code that is not easily available to other researchers and the introduction of climate model differences solely due to the varying performance of these software systems whose nuances relative to one another are poorly known.
Recently, an international team of researchers has decided to work together to break down the barriers between the various groups and countries through the formation of the IQuOD (International Quality Controlled Dataset) initiative. One of the key aims is to intercompare the performance of the various automatic quality control tests that are presently being run to determine a best performing set. This work has started. However, it currently involves individuals running test datasets through their own systems and is being confounded by complications associated with the differences in the file formats and systems that are in use in the various labs and countries.
The IQuOD proposal is to set up an open quality control benchmarking system. Work will begin by implementing a battery of simple tests to run on some test data, and producing summary statistics and visualizations of the results. Later goals include helping researchers either wrap their existing C, Fortran and MATLAB test functions in Python for use in this test suite, or re-implementing those tests in native Python.
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Countries owning the source
Sea Region
Spatial Coverage
Data policy
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Themes
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Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: GLOBAL
Sea Region: World
Themes: DS02 Chemical oceanography, DS03 Physical oceanography
Keywords: data processing, data quality, python, quality control
Last updated: 26/04/2021
Configuration to help Global Biotic Interactions (GloBI, https://globalbioticinteractions.org) index datasets via the Biological & Chemical Oceanography Data Management Office https://www.bco-dmo.org/ at the Woods Hole Oceanographic Institution http://www.whoi.edu/.
Indexed datasets include:
Almeida, F. (2005) Trophic Ecology of Atlantic Cod, off Cape Cod, MA, from F/V Riena Marie NEC-FA2001-1 in the Gulf of Maine from 2001-2004 (NEC-CoopRes project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version final) Version Date 2005-10-01 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/3087
Note that while the BCO-DMO project maintains a dataset registry and provides open data access, schema's for individual datasets need to be individually created after manually finding datasets that contains species interactions.
Configuration to help Global Biotic Interactions (GloBI, https://globalbioticinteractions.org) index datasets via the Biological & Chemical Oceanography Data Management Office https://www.bco-dmo.org/ at the Woods Hole Oceanographic Institution http://www.whoi.edu/.
Indexed datasets include:
Almeida, F. (2005) Trophic Ecology of Atlantic Cod, off Cape Cod, MA, from F/V Riena Marie NEC-FA2001-1 in the Gulf of Maine from 2001-2004 (NEC-CoopRes project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version final) Version Date 2005-10-01 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/3087
Note that while the BCO-DMO project maintains a dataset registry and provides open data access, schema's for individual datasets need to be individually created after manually finding datasets that contains species interactions.
Technical contact email
please check the record details page
Host institution of the resource
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Interface Languages
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Countries owning the source
Sea Region
Spatial Coverage
Data policy
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Themes
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Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS01 Biological oceanography, DS02 Chemical oceanography, DS03 Physical oceanography, DS06 Cross-discipline
Keywords: data access
Last updated: 01/05/2021
BioticExplorer application - Institute of Marine Research Norway (ODIS id: 1875)
BioticExplorer application - Institute of Marine Research Norway
A Shiny app to explore Biotic data within the Institute of Marine Research Norway (IMR) database.
This is the developmental version of the Biotic Explorer Shiny app intended for examination and manipulation of the Norwegian Maritime Data Center (NMD) standard Biotic xml files as well as the IMR’s Biotic database (see the User guide section). The application has been developed by the Stox team at the IMR.
The app can be run on a desktop (i.e. your computer) for local files and on a server for both local files and the entire IMR Biotic database.
BioticExplorer application - Institute of Marine Research Norway (ODIS id 1875)
BioticExplorer application - Institute of Marine Research Norway
Original (non-English) name
Acronym
BioticExplorer - IMR
Citation
Abstract
A Shiny app to explore Biotic data within the Institute of Marine Research Norway (IMR) database.
This is the developmental version of the Biotic Explorer Shiny app intended for examination and manipulation of the Norwegian Maritime Data Center (NMD) standard Biotic xml files as well as the IMR’s Biotic database (see the User guide section). The application has been developed by the Stox team at the IMR.
The app can be run on a desktop (i.e. your computer) for local files and on a server for both local files and the entire IMR Biotic database.
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Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: Norway
Sea Region: Arctic Ocean, Barents Sea, North Sea, Norwegian Sea
Themes: DS01 Biological oceanography
Keywords: Fish, biology, data exploration, r-package
Last updated: 22/04/2021
Bjerknes Climate Data Centre software repository (ODIS id: 1804)
Types: Software (ocean related)
Languages: English
Countries: Norway
Host Countries: Norway
Sea Region: World
Themes: DS01 Biological oceanography, DS02 Chemical oceanography, DS03 Physical oceanography, DS04 Marine geology, DS05 Atmosphere
Keywords: Java, data access, data analysis, data processing, javascript, oceanography, python, r-package
Last updated: 16/05/2021
c-squares - Commonwealth Scientific and Industrial Research Organisation (ODIS id: 1443)
http://www.cmar.csiro.au/csquares/
C-squares is a system for storage, querying, display, and exchange of "spatial data" locations and e ...
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c-squares - Commonwealth Scientific and Industrial Research Organisation
C-squares is a system for storage, querying, display, and exchange of "spatial data" locations and extents in a simple, text-based, human- and machine- readable format. It uses numbered (coded) squares on the earth's surface measured in degrees (or fractions of degrees) of latitude and longitude as fundamental units of spatial information, which can then be quoted as single squares (similar to a "global postcode") in which one or more data points are located, or be built up into strings of codes to represent a wide variety of shapes and sizes of spatial data "footprints".
"Spatial data" (short for "geospatial data") in this context means any data which relate to a particular position on the earth's surface - and thus, for example, could be plotted on a map.
c-squares - Commonwealth Scientific and Industrial Research Organisation (ODIS id 1443)
c-squares - Commonwealth Scientific and Industrial Research Organisation
Original (non-English) name
Acronym
c-squares - CSIRO
Citation
Rees, Tony. 2003. "C-Squares", a New Spatial Indexing System and its Applicability to the Description of Oceanographic Datasets. Oceanography 16 (1), pp. 11-19.
Abstract
C-squares is a system for storage, querying, display, and exchange of "spatial data" locations and extents in a simple, text-based, human- and machine- readable format. It uses numbered (coded) squares on the earth's surface measured in degrees (or fractions of degrees) of latitude and longitude as fundamental units of spatial information, which can then be quoted as single squares (similar to a "global postcode") in which one or more data points are located, or be built up into strings of codes to represent a wide variety of shapes and sizes of spatial data "footprints".
"Spatial data" (short for "geospatial data") in this context means any data which relate to a particular position on the earth's surface - and thus, for example, could be plotted on a map.
Calypso - Satellite Data Processing, Archiving and Distribution Center at French research institute for the exploitation of the sea
Calypso allow visualisation and interactive analysis to various data used or produced by GlobWave project for the validation or inter-comparison with satellite data, such as buoys, satellite/buoy matchups or model outputs. This application has been implemented by Ifremer/Cersat and requires flash plugin on your navigator.
Calypso is intended to provide users with some user-friendly means to investigate the content and extent of the various data collected or produced, to visually assess the quality and accuracy of the satellite measurements, as well as displaying or comparing other potiential sources of measurements.
Calypso - Satellite Data Processing, Archiving and Distribution Center at French research institute for the exploitation of the sea (ODIS id 1891)
Calypso - Satellite Data Processing, Archiving and Distribution Center at French research institute for the exploitation of the sea
Original (non-English) name
Acronym
Calypso - CERSAT-IFREMER
Citation
Abstract
Calypso allow visualisation and interactive analysis to various data used or produced by GlobWave project for the validation or inter-comparison with satellite data, such as buoys, satellite/buoy matchups or model outputs. This application has been implemented by Ifremer/Cersat and requires flash plugin on your navigator.
Calypso is intended to provide users with some user-friendly means to investigate the content and extent of the various data collected or produced, to visually assess the quality and accuracy of the satellite measurements, as well as displaying or comparing other potiential sources of measurements.
Technical contact email
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Host institution of the resource
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Countries owning the source
Sea Region
Spatial Coverage
Data policy
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Themes
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Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: France
Host Countries: France
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: Satellite, data analysis
Last updated: 12/06/2021
A Python module for calculating seawater carbon and boron chemistry.
This will be particularly useful for anyone thinking about oceans in the distant past, when Mg and Ca concentrations were different. I use Mathis Hain's MyAMI model to adjust speciation constants for Mg and Ca concentration.
Tested in the modern ocean against GLODAPv2 data (see below). Performs as well as Matlab CO2SYS.
Oscar. (2018, August 23). oscarbranson/cbsyst: beta (Version 0.3.6). Zenodo. http://doi.org/10.5281/zenodo.1402262
Abstract
A Python module for calculating seawater carbon and boron chemistry.
This will be particularly useful for anyone thinking about oceans in the distant past, when Mg and Ca concentrations were different. I use Mathis Hain's MyAMI model to adjust speciation constants for Mg and Ca concentration.
Tested in the modern ocean against GLODAPv2 data (see below). Performs as well as Matlab CO2SYS.
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Countries owning the source
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Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: United Kingdom
Host Countries: United Kingdom
Sea Region: World
Themes: DS02 Chemical oceanography
Keywords: boron, carbon, isotopes, oceanography, oceans, python
Last updated: 15/05/2021
Chad A. Greene, Kaustubh Thirumalai, Kelly A. Kearney, José Miguel Delgado, Wolfgang Schwanghart, Natalie S. Wolfenbarger, … Donald D. Blankenship. (2019, February 18). The Climate Data Toolbox for Matlab (Version v1.00). Zenodo. http://doi.org/10.5281/zenodo.2590731
Abstract
This page lists the contents of Climate Data Tools for Matlab. For help getting started with CDT
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Types
Interaction techs
Contributing data to
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Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS03 Physical oceanography, DS05 Atmosphere
Keywords: ARGOS, Argo, CTD, climate, matlab
Last updated: 01/05/2021
Cefas Data Hub (ODIS id: 1082)
http://data.cefas.co.uk
The Centre for the Environment, Fisheries and Aquaculture Science (Cefas), as one of the world's lon ...
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Cefas Data Hub
The Centre for the Environment, Fisheries and Aquaculture Science (Cefas), as one of the world's longest-established marine research organisations, has provided advice on the sustainable exploitation of marine resources since 1902. Today Cefas works in support of a healthy environment and a growing blue economy providing innovative solutions for the aquatic environment, biodiversity and food security. The Cefas Data Portal provides access to over 2125 metadata records, with over 6402 data sets available to download and connect to in support of commitments to Open Science. Datasets available are increasingly diverse and include many legacy datasets including those from fish, shellfish and plankton surveys from the 1980's to the present day. Other increasingly international datasets made available include species migration data from tagging activities and data on habitat and sediment, ecosystem change, human activities including marine litter, otolith sampling and fish stomach contents, oceanography, acoustics, health and water quality. Data is provided under UK Open Government License by default where feasible.
The Centre for the Environment, Fisheries and Aquaculture Science (Cefas), as one of the world's longest-established marine research organisations, has provided advice on the sustainable exploitation of marine resources since 1902. Today Cefas works in support of a healthy environment and a growing blue economy providing innovative solutions for the aquatic environment, biodiversity and food security. The Cefas Data Portal provides access to over 2125 metadata records, with over 6402 data sets available to download and connect to in support of commitments to Open Science. Datasets available are increasingly diverse and include many legacy datasets including those from fish, shellfish and plankton surveys from the 1980's to the present day. Other increasingly international datasets made available include species migration data from tagging activities and data on habitat and sediment, ecosystem change, human activities including marine litter, otolith sampling and fish stomach contents, oceanography, acoustics, health and water quality. Data is provided under UK Open Government License by default where feasible.
Currently over 135 DOIs for data and data products
Interface Languages
Contributing Countries
Countries owning the source
Sea Region
Spatial Coverage
Data policy
Metadata standard
Keywords
Themes
DOI's
Types
Interaction techs
Contributing data to
Obtaining data from
Types: Data catalogue, Data products (model output, forecasting products, climatologies, re-analysis, etc), Data systems/portals (allowing downloading of data sets), Information of platforms (buoys, sensors, floats, gliders, satellites), Maps and atlases (geospatial products), Real-time observing systems (and access to their metadata and data), Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: United Kingdom
Sea Region: World
Themes: DS01 Biological oceanography, DS02 Chemical oceanography, DS03 Physical oceanography, DS04 Marine geology, DS06 Cross-discipline, DS10 Environment, DS11 Fisheries and aquaculture, DS12 Human activities
Keywords: Aquatic pathology, Chartering, Climate change, Laboratory services and analysis, Modelling, Programme management, Research, advice and consultancy, Surveys, Training and capacity building, UK and Overseas work, aquatic animal health, assessment and advice, data management, ecosystem understanding, emergency response, marine biodiversity, marine monitoring, ocean and coastal processes, sanitary surveys, sea temperature and salinity trends, seafood safety, sustainable fisheries, technology
Last updated: 30/03/2023
This page provides tide calendars off the coast of Mexico. The forecasts are based on historical hourly sea level data obtained by CICESE, the National Autonomous University of Mexico, or the Secretary of the Navy. Monthly graphic calendars are offered for more than 40 locations.
For partial compatibility with the original page, on this page, you can obtain the platform program for Windows 98/2000 / Me / XP and NT. "MAR V1.0 NEW" which is another source to get the calendars.
This page provides tide calendars off the coast of Mexico. The forecasts are based on historical hourly sea level data obtained by CICESE, the National Autonomous University of Mexico, or the Secretary of the Navy. Monthly graphic calendars are offered for more than 40 locations.
For partial compatibility with the original page, on this page, you can obtain the platform program for Windows 98/2000 / Me / XP and NT. "MAR V1.0 NEW" which is another source to get the calendars.
Join a global movement to keep beaches, waterways and the ocean trash free. Head out to your favorite beach and use the app to easily record each item of trash you collect. Then share your effort with family and friends.
With Clean Swell, simply “Start Collecting” trash wherever you are around the world and the data you collect will instantaneously upload to Ocean Conservancy’s global ocean trash database. These data deliver a global snapshot of ocean trash, providing researchers and policy-makers insight to inform solutions. Join the thousands of International Coastal Cleanup® volunteers who are working for a cleaner ocean by picking up the millions of pounds of trash that wash onto beaches around the world. Even check out your Cleanup history, so anytime, anywhere you can see the impact you’ve had on making our ocean a cleaner and healthier ecosystem.
CleanSwell App Android - Ocean Conservancy (ODIS id 2885)
Join a global movement to keep beaches, waterways and the ocean trash free. Head out to your favorite beach and use the app to easily record each item of trash you collect. Then share your effort with family and friends.
With Clean Swell, simply “Start Collecting” trash wherever you are around the world and the data you collect will instantaneously upload to Ocean Conservancy’s global ocean trash database. These data deliver a global snapshot of ocean trash, providing researchers and policy-makers insight to inform solutions. Join the thousands of International Coastal Cleanup® volunteers who are working for a cleaner ocean by picking up the millions of pounds of trash that wash onto beaches around the world. Even check out your Cleanup history, so anytime, anywhere you can see the impact you’ve had on making our ocean a cleaner and healthier ecosystem.
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS10 Environment
Keywords: Beach litter, Public participation, conservation, cooperation, marine environments, voluntary contributions
Last updated: 14/02/2022
CleanSwell App OS - Ocean Conservancy (ODIS id: 2886)
Join a global movement to keep beaches, waterways and the ocean trash free. Head out to your favorite beach and use the app to easily record each item of trash you collect. Then share your effort with family and friends.
With Clean Swell, simply “Start Collecting” trash wherever you are around the world and the data you collect will instantaneously upload to Ocean Conservancy’s global ocean trash database. These data deliver a global snapshot of ocean trash, providing researchers and policy-makers insight to inform solutions. Join the thousands of International Coastal Cleanup® volunteers who are working for a cleaner ocean by picking up the millions of pounds of trash that wash onto beaches around the world. Even check out your Cleanup history, so anytime, anywhere you can see the impact you’ve had on making our ocean a cleaner and healthier ecosystem.
CleanSwell App OS - Ocean Conservancy (ODIS id 2886)
Join a global movement to keep beaches, waterways and the ocean trash free. Head out to your favorite beach and use the app to easily record each item of trash you collect. Then share your effort with family and friends.
With Clean Swell, simply “Start Collecting” trash wherever you are around the world and the data you collect will instantaneously upload to Ocean Conservancy’s global ocean trash database. These data deliver a global snapshot of ocean trash, providing researchers and policy-makers insight to inform solutions. Join the thousands of International Coastal Cleanup® volunteers who are working for a cleaner ocean by picking up the millions of pounds of trash that wash onto beaches around the world. Even check out your Cleanup history, so anytime, anywhere you can see the impact you’ve had on making our ocean a cleaner and healthier ecosystem.
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS10 Environment
Keywords: Beach litter, Public participation, data collection, voluntary contributions
Last updated: 07/11/2021
Climpact is an R package that calculates indices of daily climate extremes. It can read data for a single site (e.g. a weather station) in the form of a text file, or for gridded data (e.g. from a climate model) in the form of netCDF files. This software directly builds off the R packages climdex.pcic and climdex.pcic.ncdf, developed by the Pacific Climate Impacts Consortium (PCIC).
If you want to calculate these indices from text files then you DO NOT need to install this software, instead go to the Climpact website to calculate these indices online.
Climpact is an R package that calculates indices of daily climate extremes. It can read data for a single site (e.g. a weather station) in the form of a text file, or for gridded data (e.g. from a climate model) in the form of netCDF files. This software directly builds off the R packages climdex.pcic and climdex.pcic.ncdf, developed by the Pacific Climate Impacts Consortium (PCIC).
If you want to calculate these indices from text files then you DO NOT need to install this software, instead go to the Climpact website to calculate these indices online.
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Types: Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: GLOBAL
Sea Region: World
Themes: DS03 Physical oceanography, DS05 Atmosphere
Keywords: NetCDF, climate, climate indices, r-package
Last updated: 15/05/2021
This package contains colormaps for commonly-used oceanographic variables. Most of the colormaps started from matplotlib colormaps, but have now been adjusted using the viscm tool to be perceptually uniform.
This package contains colormaps for commonly-used oceanographic variables. Most of the colormaps started from matplotlib colormaps, but have now been adjusted using the viscm tool to be perceptually uniform.
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Types: Software (ocean related)
Languages: English
Countries: Uganda
Host Countries: United States
Sea Region: World
Themes: DS01 Biological oceanography, DS02 Chemical oceanography, DS03 Physical oceanography, DS05 Atmosphere, DS06 Cross-discipline
Keywords: data visualization, oceanography, python
Last updated: 26/04/2021
This repository includes software compatible with MATLAB and GNU Octave for calculating marine CO2 system variables (CO2SYS.m), computing partial derivatives of calculated CO2 system variables with respect to inputs (derivnum.m), and propagating uncertainties for CO2 system calculations (errors.m). This software performs similarly to previously released versions of CO2SYS.m (v1: https://cdiac.ess-dive.lbl.gov/ftp/co2sys/CO2SYS_calc_MATLAB_v1.1/; v2: https://github.com/jamesorr/CO2SYS-MATLAB), and includes the following extended capabilities, additions, and bug fixes (among other minor changes):
Can accept input parameters of [CO3], [HCO3], and [CO2], and propagate their uncertainties
Includes NH3 and HS as alkalinity contributors, and propagates their uncertainties
Uses separate inputs to specify choices for characterizations of K1K2, KSO4, KF, and TB
Does not evaluate input parameters equal to -999 or NaN
Exits pH iteration loops that do not converge and indicates where a problem occurred
Provides exactly identical pH results for a given input line, no matter the other lines of input parameters (this is not necessarily the case for prior versions of CO2SYS.m)
Uses an updated definition of the ideal gas constant (https://physics.nist.gov/cgi-bin/cuu/Value?r)
Fixes bugs in CO2SYS.m Revelle factor calculation and derivnum.m output conditions
Includes K1 and K2 constants defined by Sulpis et al. (2020), K2 constant defined by Schockman and Byrne (2021), KF constant defined by Perez and Fraga (1987), and KSO4 constant of Waters and Millero (2013)
errors.m includes optional calcium concentration uncertainty input as discussed in Dillon et al. (2020)
Also included in this repository is a routine to compare CO2SYSv3 to CO2SYSv2 (compare_versions.m), a routine to calculate substrate-inhibitor ratios ([HCO3]/[H]; Bach, 2015) from CO2SYS output (SIR.m), a routine to calculate total concentrations of conservative elements (Na, Mg, Cl, etc.) from CO2SYS output (TOTALS.m), and an example function to run CO2SYSv3 and plot some of the output (example_CO2SYS.m).
The full citation for CO2SYSv3 (Sharp et al., 2020) is given below. Cite this version if using CO2SYSv3 for CO2 system calculations or propagating errors in CO2 system calculations using the extended errors.m or derivnum.m routines provided here.
If using any CO2SYS program for CO2 system calculations, cite also the original CO2SYS DOS work of Lewis and Wallace (1998).
If using the CO2SYS MATLAB program for CO2 system calculations, cite also the work of van Heuven et al. (2011).
If using the derivnum.m and/or errors.m programs for CO2 system error propagations, cite also the work of Orr et al. (2018).
Abstract
This repository includes software compatible with MATLAB and GNU Octave for calculating marine CO2 system variables (CO2SYS.m), computing partial derivatives of calculated CO2 system variables with respect to inputs (derivnum.m), and propagating uncertainties for CO2 system calculations (errors.m). This software performs similarly to previously released versions of CO2SYS.m (v1: https://cdiac.ess-dive.lbl.gov/ftp/co2sys/CO2SYS_calc_MATLAB_v1.1/; v2: https://github.com/jamesorr/CO2SYS-MATLAB), and includes the following extended capabilities, additions, and bug fixes (among other minor changes):
Can accept input parameters of [CO3], [HCO3], and [CO2], and propagate their uncertainties
Includes NH3 and HS as alkalinity contributors, and propagates their uncertainties
Uses separate inputs to specify choices for characterizations of K1K2, KSO4, KF, and TB
Does not evaluate input parameters equal to -999 or NaN
Exits pH iteration loops that do not converge and indicates where a problem occurred
Provides exactly identical pH results for a given input line, no matter the other lines of input parameters (this is not necessarily the case for prior versions of CO2SYS.m)
Uses an updated definition of the ideal gas constant (https://physics.nist.gov/cgi-bin/cuu/Value?r)
Fixes bugs in CO2SYS.m Revelle factor calculation and derivnum.m output conditions
Includes K1 and K2 constants defined by Sulpis et al. (2020), K2 constant defined by Schockman and Byrne (2021), KF constant defined by Perez and Fraga (1987), and KSO4 constant of Waters and Millero (2013)
errors.m includes optional calcium concentration uncertainty input as discussed in Dillon et al. (2020)
Also included in this repository is a routine to compare CO2SYSv3 to CO2SYSv2 (compare_versions.m), a routine to calculate substrate-inhibitor ratios ([HCO3]/[H]; Bach, 2015) from CO2SYS output (SIR.m), a routine to calculate total concentrations of conservative elements (Na, Mg, Cl, etc.) from CO2SYS output (TOTALS.m), and an example function to run CO2SYSv3 and plot some of the output (example_CO2SYS.m).
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Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS02 Chemical oceanography
Keywords: Modelling, matlab, oceanography
Last updated: 01/05/2021
CO2SYS software for MATLAB (or octave) to compute variables of ocean CO2 system. Here you will find a MATLAB-version of CO2SYS, originally written for DOS. CO2SYS calculates and returns a detailed state of the carbonate system for oceanographic water samples, if supplied with sufficient input. Use the CO2SYS function as you would use any other MATLAB inline function, i.e., a=func(b,c). For much detail about how to use CO2SYS, simply type "help CO2SYS" in MATLAB. The help function also works for the two new uncertainty propagation routines (errors and derivnum). For details on the internal workings of CO2SYS, please refer to the original publication (Lewis and Wallace, 1998) available at http://cdiac.ornl.gov/oceans/co2rprt.html. Since CO2SYS and the two new routines each allow input of vectors, with just one call they can process many samples. Each sample may have a different salinity, temperature, pH scale, dissociation constants, etc.
he original version for DOS was written by Lewis and Wallace (1998). That was translated to MATLAB by Denis Pierrot at CIMAS, University of Miami, Miami, Florida. Then that code was vectorized, refined, and optimized for computational speed by Steven van Heuven, University of Groningen, The Netherlands. Although functionality was added, the output of the CO2SYS function has not changed in form. All versions of CO2SYS that are available at CDIAC (DOS, Excel, MATLAB) should produce nearly identical results when supplied with identical input. Indeed, close agreement between these different versions of CO2SYS was demonstrated by Orr et al. (2015). More recently, CO2SYS-MATLAB has been modified to include uncertainty propagation (Orr et al., 2018): the main routine CO2SYS.m was altered slightly, while two new routines were added (errors.m and derivnum.m)
If you discover inconsistencies or have a more general bug report for CO2SYS.m, please notify S. van Heuven (svheuven at gmail.com), Denis Pierrot (Denis.Pierrot at noaa.gov), or Alex Kozyr (kozyr at ornl.gov). For any concerns about the uncertainty propagation routines (errors.m and derivnum.m), please contact James Orr (james.orr at lsce.ipsl.fr)
CO2SYS software for MATLAB (or octave) to compute variables of ocean CO2 system. Here you will find a MATLAB-version of CO2SYS, originally written for DOS. CO2SYS calculates and returns a detailed state of the carbonate system for oceanographic water samples, if supplied with sufficient input. Use the CO2SYS function as you would use any other MATLAB inline function, i.e., a=func(b,c). For much detail about how to use CO2SYS, simply type "help CO2SYS" in MATLAB. The help function also works for the two new uncertainty propagation routines (errors and derivnum). For details on the internal workings of CO2SYS, please refer to the original publication (Lewis and Wallace, 1998) available at http://cdiac.ornl.gov/oceans/co2rprt.html. Since CO2SYS and the two new routines each allow input of vectors, with just one call they can process many samples. Each sample may have a different salinity, temperature, pH scale, dissociation constants, etc.
he original version for DOS was written by Lewis and Wallace (1998). That was translated to MATLAB by Denis Pierrot at CIMAS, University of Miami, Miami, Florida. Then that code was vectorized, refined, and optimized for computational speed by Steven van Heuven, University of Groningen, The Netherlands. Although functionality was added, the output of the CO2SYS function has not changed in form. All versions of CO2SYS that are available at CDIAC (DOS, Excel, MATLAB) should produce nearly identical results when supplied with identical input. Indeed, close agreement between these different versions of CO2SYS was demonstrated by Orr et al. (2015). More recently, CO2SYS-MATLAB has been modified to include uncertainty propagation (Orr et al., 2018): the main routine CO2SYS.m was altered slightly, while two new routines were added (errors.m and derivnum.m)
If you discover inconsistencies or have a more general bug report for CO2SYS.m, please notify S. van Heuven (svheuven at gmail.com), Denis Pierrot (Denis.Pierrot at noaa.gov), or Alex Kozyr (kozyr at ornl.gov). For any concerns about the uncertainty propagation routines (errors.m and derivnum.m), please contact James Orr (james.orr at lsce.ipsl.fr)
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Types: Software (ocean related)
Languages: English
Countries: France
Host Countries: France
Sea Region: World
Themes: DS02 Chemical oceanography
Keywords: carbon dioxide, carbonate system, matlab, uncertainty propagation routines
Last updated: 09/05/2021
COAMPS Winds Model API - Coastal Observing Research and Development Center (ODIS id: 2318)
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: Atlantic Ocean, Pacific Ocean
Themes: DS03 Physical oceanography, DS05 Atmosphere
Keywords: API, data services, wind
Last updated: 25/09/2021
CoastalTools is a software package written in Matlab™ to load, manipulate, analyse and plot timeseries data of the sort held by the Channel Coastal Observatory (CCO) and the British Oceanographic Data Centre (BODC). It is not intended to replace database utilities such as SANDS™. Instead it allows the user to rapidly load CCO and BODC data sets (typically waves, tides and beach profiles) and to examine derived properties, such as inshore energy, alongshore drift, beach volume change, etc. The models used are relatively simple and not intended as a substitute for more detailed coastal process modelling. However, they are sufficient for rapid assessments and to research such things as storminess, the influence of clustering, beach dynamics, spatial and temporal change, etc. The code is Open Source and issued under a GNU General Public License. For further details, online manual and to download the software see: http://www.coastalsea.uk/#download-page
CoastalTools - Channel Coastal Observatory (ODIS id 1890)
CoastalTools is a software package written in Matlab™ to load, manipulate, analyse and plot timeseries data of the sort held by the Channel Coastal Observatory (CCO) and the British Oceanographic Data Centre (BODC). It is not intended to replace database utilities such as SANDS™. Instead it allows the user to rapidly load CCO and BODC data sets (typically waves, tides and beach profiles) and to examine derived properties, such as inshore energy, alongshore drift, beach volume change, etc. The models used are relatively simple and not intended as a substitute for more detailed coastal process modelling. However, they are sufficient for rapid assessments and to research such things as storminess, the influence of clustering, beach dynamics, spatial and temporal change, etc. The code is Open Source and issued under a GNU General Public License. For further details, online manual and to download the software see: http://www.coastalsea.uk/#download-page
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Types: Software (ocean related)
Languages: English
Countries: United Kingdom
Host Countries: United Kingdom
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: Coastal zone, data analysis, time-series
Last updated: 26/04/2021
CoastWatch Image Software - NOAA CoastWatch Great Lakes Node
CoastWatch AVHRR satellite image files, which contain image data, coastline and lat./long. graphics, and header information, are compressed using a special compression format. Thus, a program is needed to decompress the image data and separate the other information for use with the imagery. Once decompressed, the images are converted to 8-bit raster files and can then be displayed using CoastWatch provided software (or any image processing software). A number of computer programs have been developed for both PC, UNIX and MAC workstations, which facilitate the use of the AVHRR sea-surface temperature and albedo imagery.
CoastWatch Image Software - NOAA CoastWatch Great Lakes Node (ODIS id 2881)
CoastWatch Image Software - NOAA CoastWatch Great Lakes Node
Original (non-English) name
Acronym
Citation
Abstract
CoastWatch AVHRR satellite image files, which contain image data, coastline and lat./long. graphics, and header information, are compressed using a special compression format. Thus, a program is needed to decompress the image data and separate the other information for use with the imagery. Once decompressed, the images are converted to 8-bit raster files and can then be displayed using CoastWatch provided software (or any image processing software). A number of computer programs have been developed for both PC, UNIX and MAC workstations, which facilitate the use of the AVHRR sea-surface temperature and albedo imagery.
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: no searegion defined
Themes: DS03 Physical oceanography, DS05 Atmosphere
Keywords: data distribution, environmental data, satellite imagery
Last updated: 14/02/2022
CoastWatch Utilities - NOAA CoastWatch East Coast Regional Node
CoastWatch Utilities is free software for visualization and analysis of satellite data. The Utilities include the CoastWatch Data Analysis Tool (CDAT) and the CoastWatch Utilities Library, both available for download in one package.
CoastWatch Utilities - NOAA CoastWatch East Coast Regional Node (ODIS id 2858)
CoastWatch Utilities - NOAA CoastWatch East Coast Regional Node
Original (non-English) name
Acronym
Citation
Please acknowledge "NOAA CoastWatch/OceanWatch" when you use data from our site and cite the particular dataset DOI as appropriate.
Abstract
CoastWatch Utilities is free software for visualization and analysis of satellite data. The Utilities include the CoastWatch Data Analysis Tool (CDAT) and the CoastWatch Utilities Library, both available for download in one package.
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: Atlantic Ocean
Themes: DS01 Biological oceanography, DS02 Chemical oceanography, DS03 Physical oceanography, DS10 Environment
Keywords: data access, data and tools, data visualization, open access, satellite data
Last updated: 07/11/2021
CoastWatch Utilities - NOAA CoastWatch West Coast Regional Node
The CoastWatch Utilities, created by the NOAA/NESDIS CoastWatch program, allow users to work with Earth science data created by the NOAA/NESDIS CoastWatch program. Users can easily manipulate and visualize data in CoastWatch HDF format, NOAA 1b format, and some flavors of NetCDF 4. The Utilities are available free via a software package that contains the CoastWatch Utilities Library and the CoastWatch Data Analysis Tool.
CoastWatch Utilities Library:
The CoastWatch Utilities Library contains the complete set of data manipulation and visualization scripts. The scripts are operated from the command line to perform batch processing, both as a stand-alone tool or in conjunction with other programs.
CoastWatch Data Analysis Tool:
CoastWatch Data Analysis Tool is a point-and-click graphical interface for many data manipulation and visualization functions available in the CoastWatch Utilities Library.
CoastWatch Utilities - NOAA CoastWatch West Coast Regional Node (ODIS id 2853)
CoastWatch Utilities - NOAA CoastWatch West Coast Regional Node
Original (non-English) name
Acronym
CoastWatch Utilities - WCRN
Citation
Abstract
The CoastWatch Utilities, created by the NOAA/NESDIS CoastWatch program, allow users to work with Earth science data created by the NOAA/NESDIS CoastWatch program. Users can easily manipulate and visualize data in CoastWatch HDF format, NOAA 1b format, and some flavors of NetCDF 4. The Utilities are available free via a software package that contains the CoastWatch Utilities Library and the CoastWatch Data Analysis Tool.
CoastWatch Utilities Library:
The CoastWatch Utilities Library contains the complete set of data manipulation and visualization scripts. The scripts are operated from the command line to perform batch processing, both as a stand-alone tool or in conjunction with other programs.
CoastWatch Data Analysis Tool:
CoastWatch Data Analysis Tool is a point-and-click graphical interface for many data manipulation and visualization functions available in the CoastWatch Utilities Library.
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: Pacific Ocean
Themes: DS01 Biological oceanography, DS02 Chemical oceanography, DS03 Physical oceanography, DS10 Environment
Keywords: data access, data and tools, data visualization, environmental data, open access
Last updated: 06/11/2021
Code Repository - Scientific Committee on Antarctic Research (ODIS id: 1870)
Code Repository - Scientific Committee on Antarctic Research
Original (non-English) name
Acronym
Code Repository - SCAR
Citation
Abstract
The Scientific Committee on Antarctic Research (SCAR) code repository
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Types: Software (ocean related)
Languages: English
Countries: Australia
Host Countries: Australia
Sea Region: Southern Ocean
Themes: DS01 Biological oceanography
Keywords: antarctica, biogeography, data analysis, diet, diet and energetics data
Last updated: 22/04/2021
Collaborative Environment for Scholarly Research and Analysis - Terrestrial Ecosystem Research Network (ODIS id: 3032)
https://coesra.tern.org.au/
CoESRA is a free cloud-based virtual desktop workbench to perform complex data analysis workflows an ...
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Collaborative Environment for Scholarly Research and Analysis - Terrestrial Ecosystem Research Network
CoESRA is a free cloud-based virtual desktop workbench to perform complex data analysis workflows and share the work embedded in a web browser accessible with AAF (Australian Access Federation) and Google account.
The CoESRA provides CentOS (7.5) & Ubuntu (16.04) operating systems virtual desktop environment with tools like Biodiverse GUI, Canopy (IDE for python and Notebook), Jupyter Lab, Kepler scientific workflow, Knime, Dropbox, LibreOffice Math, ownCloud Client, Macroeco Desktop, OpenRefine, Panoply, QGIS and RStudio. All these tools can be accessible by logging into a CoESRA website using an Australian Access Federation (AAF) or Google account. Following are some of the salient features of CoESRA:
Provide virtual desktop environment accessible via a web browser,
Ability to store data for both public and private use inside the environment,
Tools to enable users to create, execute and share simulations,
Ability to use Nimrod K with Kepler scientific workflow to distribute jobs,
Provide access to re-usable repeatable Kepler scientific workflows.
A user is able to access the virtual desktop from their web browser (Google Chrome is highly recommended) once the registration process is completed.
Collaborative Environment for Scholarly Research and Analysis - Terrestrial Ecosystem Research Network (ODIS id 3032)
Collaborative Environment for Scholarly Research and Analysis - Terrestrial Ecosystem Research Network
Original (non-English) name
Acronym
CoESRA - TERN
Citation
Abstract
CoESRA is a free cloud-based virtual desktop workbench to perform complex data analysis workflows and share the work embedded in a web browser accessible with AAF (Australian Access Federation) and Google account.
The CoESRA provides CentOS (7.5) & Ubuntu (16.04) operating systems virtual desktop environment with tools like Biodiverse GUI, Canopy (IDE for python and Notebook), Jupyter Lab, Kepler scientific workflow, Knime, Dropbox, LibreOffice Math, ownCloud Client, Macroeco Desktop, OpenRefine, Panoply, QGIS and RStudio. All these tools can be accessible by logging into a CoESRA website using an Australian Access Federation (AAF) or Google account. Following are some of the salient features of CoESRA:
Provide virtual desktop environment accessible via a web browser,
Ability to store data for both public and private use inside the environment,
Tools to enable users to create, execute and share simulations,
Ability to use Nimrod K with Kepler scientific workflow to distribute jobs,
Provide access to re-usable repeatable Kepler scientific workflows.
A user is able to access the virtual desktop from their web browser (Google Chrome is highly recommended) once the registration process is completed.
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Countries owning the source
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Types
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Types: Software (ocean related)
Languages: English
Countries: Australia
Host Countries: Australia
Sea Region: no searegion defined
Themes: DS08 Terrestrial, DS10 Environment
Keywords: Ecosystems, Virtual Research Environment, data analysis
Last updated: 25/12/2021
Community size spectrum simulator - Centre for Ocean Life (ODIS id: 2250)
Community size spectrum simulator - Centre for Ocean Life
Calculate the expected ecosystem effect of a management plan involving changing the fishing mortality on one aspect of the fish community from an "initial" fishing pattern to "new" fishing pattern.
Community size spectrum simulator - Centre for Ocean Life (ODIS id 2250)
Community size spectrum simulator - Centre for Ocean Life
Original (non-English) name
Acronym
Citation
Abstract
Calculate the expected ecosystem effect of a management plan involving changing the fishing mortality on one aspect of the fish community from an "initial" fishing pattern to "new" fishing pattern.
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Types: Data products (model output, forecasting products, climatologies, re-analysis, etc), Software (ocean related)
Languages: English
Countries: Denmark
Host Countries: Denmark
Sea Region: World
Themes: DS11 Fisheries and aquaculture
Keywords: Modelling, biomass, data analysis, ecosystem assessment
Last updated: 05/09/2021
CoTeDe is an Open Source Python package to quality control (QC) oceanographic data such as temperature and salinity. It was designed to attend individual scientists as well as real-time operations on large data centers. To achieve that, CoTeDe is highly customizable, giving the user full control to compose the desired set of tests including the specific parameters of each test, or choose from a list of preset QC procedures.
I believe that we can do better than we have been doing with more flexible classification techniques, which includes machine learning. My goal is to minimize the burden on manual expert QC improving the consistency, performance, and reliability of the QC procedure for oceanographic data, especially for real-time operations.
CoTeDe is the result from several generations of quality control systems that started in 2006 with real-time QC of TSGs and were later expanded for other platforms including CTDs, XBTs, gliders, and others.
CoTeDe contains several QC procedures that can be easily combined in different ways:
Pre-set standard tests according to the recommendations by GTSPP, EGOOS, XBT, Argo or QARTOD;
Custom set of tests, including user defined thresholds;
Two different fuzzy logic approaches: as proposed by Timms et. al 2011 & Morello et. al. 2014, and using usual defuzification by the bisector;
A novel approach based on Anomaly Detection, described by Castelao 2021 (available since 2014 http://arxiv.org/abs/1503.02714).
Each measuring platform is a different realm with its own procedures, metadata, and meaningful visualization. So CoTeDe focuses on providing a robust framework with the procedures and lets each application, and the user, to decide how to drive the QC. For instance, the pySeabird package is another package that understands CTD and uses CoTeDe as a plugin to QC.
Castelao, Guilherme. (2020, March 31). CoTeDe: Quality Controlling Oceanographic Data (Version v0.21.3). Zenodo. http://doi.org/10.5281/zenodo.3733959
Abstract
CoTeDe is an Open Source Python package to quality control (QC) oceanographic data such as temperature and salinity. It was designed to attend individual scientists as well as real-time operations on large data centers. To achieve that, CoTeDe is highly customizable, giving the user full control to compose the desired set of tests including the specific parameters of each test, or choose from a list of preset QC procedures.
I believe that we can do better than we have been doing with more flexible classification techniques, which includes machine learning. My goal is to minimize the burden on manual expert QC improving the consistency, performance, and reliability of the QC procedure for oceanographic data, especially for real-time operations.
CoTeDe is the result from several generations of quality control systems that started in 2006 with real-time QC of TSGs and were later expanded for other platforms including CTDs, XBTs, gliders, and others.
CoTeDe contains several QC procedures that can be easily combined in different ways:
Pre-set standard tests according to the recommendations by GTSPP, EGOOS, XBT, Argo or QARTOD;
Custom set of tests, including user defined thresholds;
Two different fuzzy logic approaches: as proposed by Timms et. al 2011 & Morello et. al. 2014, and using usual defuzification by the bisector;
A novel approach based on Anomaly Detection, described by Castelao 2021 (available since 2014 http://arxiv.org/abs/1503.02714).
Each measuring platform is a different realm with its own procedures, metadata, and meaningful visualization. So CoTeDe focuses on providing a robust framework with the procedures and lets each application, and the user, to decide how to drive the QC. For instance, the pySeabird package is another package that understands CTD and uses CoTeDe as a plugin to QC.
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Countries owning the source
Sea Region
Spatial Coverage
Data policy
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Keywords
Themes
DOI's
Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS02 Chemical oceanography, DS03 Physical oceanography
Keywords: CTD, Glider, XBT, oceanography, python, quality control, thermosalinograph
Last updated: 15/05/2021
To help you form in oceanography, it is important to easily and at any time the best course of Oceanography.
This free app is a dynamic library supplied by the best French educational websites specialize in courses of Oceanography.
The courses on the following themes are present in our application.
- History of oceanography
- Marine biology
- Marine Ecology
- Ichthyology
- Chemical Oceanography
- Marine geology
- Physical Oceanography
- Marine meteorology
- Marine Engineering
To help you form in oceanography, it is important to easily and at any time the best course of Oceanography.
This free app is a dynamic library supplied by the best French educational websites specialize in courses of Oceanography.
The courses on the following themes are present in our application.
- History of oceanography
- Marine biology
- Marine Ecology
- Ichthyology
- Chemical Oceanography
- Marine geology
- Physical Oceanography
- Marine meteorology
- Marine Engineering
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Types: Software (ocean related)
Languages: English
Countries: France
Host Countries: France
Sea Region: World
Themes: DS01 Biological oceanography, DS02 Chemical oceanography, DS03 Physical oceanography, DS04 Marine geology, DS06 Cross-discipline, DS12 Human activities
Keywords: education, mobile phone application, oceanography, oceans
Last updated: 12/12/2021
The csasAtlPhys R package supports DFO Atlantic region physical oceanography CSAS analysis.
csasAtlPhys helps support data analysis to produce data products presented in the research document that summarizes the meteorological and physical oceanographic conditions on the Scotian shelf and Gulf of Maine, as seen here.
This package mainly has functionality to download and read various data sources around the web. It also has some basic plotting methods used to produce consistent plots required for the document. In addition, it had some functions for some types of calculations. Various files that are critical for various aspects of the analysis also reside in this package to insure that they are never lost.
Please note that this package does not have any figures or data output for the analysis described above.
This package is in active development, and due to the nature of the package, there is no plan at this time to submit to CRAN.
The csasAtlPhys R package supports DFO Atlantic region physical oceanography CSAS analysis.
csasAtlPhys helps support data analysis to produce data products presented in the research document that summarizes the meteorological and physical oceanographic conditions on the Scotian shelf and Gulf of Maine, as seen here.
This package mainly has functionality to download and read various data sources around the web. It also has some basic plotting methods used to produce consistent plots required for the document. In addition, it had some functions for some types of calculations. Various files that are critical for various aspects of the analysis also reside in this package to insure that they are never lost.
Please note that this package does not have any figures or data output for the analysis described above.
This package is in active development, and due to the nature of the package, there is no plan at this time to submit to CRAN.
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Types
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Contributing data to
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Types: Software (ocean related)
Languages: English
Countries: Canada
Host Countries: Canada
Sea Region: Atlantic Ocean
Themes: DS03 Physical oceanography, DS05 Atmosphere
Keywords: data access, data analysis, data visualization, oceanography, r-package
Last updated: 01/05/2021
CSR Application - Iranian National Center for Ocean Data (ODIS id: 692)
CSR Application - Iranian National Center for Ocean Data
INCOD has developed CSR entry tool based on ISO 19139 standard.
This application was developed in order to manipulate and publish CSR records by marine organizations. It is freely accessible through INCOD portal.
CSR Application - Iranian National Center for Ocean Data (ODIS id 692)
CSR Application - Iranian National Center for Ocean Data
Original (non-English) name
Acronym
CSR Application - INCOD
Citation
Abstract
INCOD has developed CSR entry tool based on ISO 19139 standard.
This application was developed in order to manipulate and publish CSR records by marine organizations. It is freely accessible through INCOD portal.
Data-Interpolating Variational Analysis in n dimensions Software
DIVAnd (Data-Interpolating Variational Analysis in n dimensions) performs an n-dimensional variational analysis/gridding of arbitrarily located observations. Observations will be interpolated/analyzed on a curvilinear grid in 1, 2, 3 or more dimensions. In this sense it is a generalization of the original two-dimensional DIVA version (still available here https://github.com/gher-ulg/DIVA but not further developed anymore).
The method bears some similarities and equivalences with Optimal Interpolation or Krigging in that it allows to create a smooth and continous field from a collection of observations, observations which can be affected by errors. The analysis method is however different in practise, allowing to take into account topological features, physical constraints etc in a natural way. The method was initially developped with ocean data in mind, but it can be applied to any field where localized observations have to be used to produce gridded fields which are "smooth".
See also https://gher-ulg.github.io/DIVAnd-presentation/#1
Data-Interpolating Variational Analysis in n dimensions Software (ODIS id 1796)
Data-Interpolating Variational Analysis in n dimensions Software
Original (non-English) name
Acronym
DIVAnd Software
Citation
Barth, A., Beckers, J.-M., Troupin, C., Alvera-Azcárate, A., and Vandenbulcke, L.: DIVAnd-1.0: n-dimensional variational data analysis for ocean observations, Geosci. Model Dev., 7, 225-241, doi:10.5194/gmd-7-225-2014, 2014.
Abstract
DIVAnd (Data-Interpolating Variational Analysis in n dimensions) performs an n-dimensional variational analysis/gridding of arbitrarily located observations. Observations will be interpolated/analyzed on a curvilinear grid in 1, 2, 3 or more dimensions. In this sense it is a generalization of the original two-dimensional DIVA version (still available here https://github.com/gher-ulg/DIVA but not further developed anymore).
The method bears some similarities and equivalences with Optimal Interpolation or Krigging in that it allows to create a smooth and continous field from a collection of observations, observations which can be affected by errors. The analysis method is however different in practise, allowing to take into account topological features, physical constraints etc in a natural way. The method was initially developped with ocean data in mind, but it can be applied to any field where localized observations have to be used to produce gridded fields which are "smooth".
See also https://gher-ulg.github.io/DIVAnd-presentation/#1
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Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: Belgium
Host Countries: Belgium
Sea Region: World
Themes: DS01 Biological oceanography, DS02 Chemical oceanography, DS03 Physical oceanography
Keywords: DIVA, Julia, data analysis, interpolation, oceanography
Last updated: 08/05/2021
DIVA allows the spatial interpolation of data (analysis) in an optimal way, comparable to optimal interpolation (OI). In comparison to OI, it takes into account coastlines, sub-basins and advection. Calculations are highly optimized and rely on a finite element resolution.
Tools to generate the finite element mesh are provided as well as tools to optimize the parameters of the analysis. Quality control of data can be performed and error fields can be calculated. In addition, detrending of data is possible. Finally 3D and 4D extensions are included with emphasis on direct computations of climatologies from Ocean Data View (ODV) spreadsheet files.
Data-Interpolating Variational Analysis Software (ODIS id 1795)
GHER-Diva, Charles Troupin, Sylvain Watelet, jmbeckers, & Alexander Barth. (2018, August 31). gher-ulg/DIVA: v4.7.2 (Version v4.7.2). Zenodo. http://doi.org/10.5281/zenodo.1407062
Abstract
DIVA allows the spatial interpolation of data (analysis) in an optimal way, comparable to optimal interpolation (OI). In comparison to OI, it takes into account coastlines, sub-basins and advection. Calculations are highly optimized and rely on a finite element resolution.
Tools to generate the finite element mesh are provided as well as tools to optimize the parameters of the analysis. Quality control of data can be performed and error fields can be calculated. In addition, detrending of data is possible. Finally 3D and 4D extensions are included with emphasis on direct computations of climatologies from Ocean Data View (ODV) spreadsheet files.
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Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: Belgium
Host Countries: Belgium
Sea Region: World
Themes: DS01 Biological oceanography, DS02 Chemical oceanography, DS03 Physical oceanography
Keywords: DIVA, SeaDataNet, data analysis, fortran, interpolation, ocean sciences, oceanography
Last updated: 08/05/2021
Data Analysis Software - NASA's Ocean Biology Distributed Active Archive Center (ODIS id: 1865)
https://seadas.gsfc.nasa.gov/
SeaDAS is a comprehensive software package for the processing, display, analysis, and quality contro ...
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Data Analysis Software - NASA's Ocean Biology Distributed Active Archive Center
SeaDAS is a comprehensive software package for the processing, display, analysis, and quality control of ocean color data. While the primary focus of SeaDAS is ocean color data, it is applicable to many satellite-based earth science data analyses. Originally developed to support the SeaWiFS mission, it now supports most U.S. and international ocean color missions.
Data Analysis Software - NASA's Ocean Biology Distributed Active Archive Center (ODIS id 1865)
Data Analysis Software - NASA's Ocean Biology Distributed Active Archive Center
Original (non-English) name
Acronym
SeaDAS - OB.DAAC
Citation
Abstract
SeaDAS is a comprehensive software package for the processing, display, analysis, and quality control of ocean color data. While the primary focus of SeaDAS is ocean color data, it is applicable to many satellite-based earth science data analyses. Originally developed to support the SeaWiFS mission, it now supports most U.S. and international ocean color missions.
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Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS02 Chemical oceanography, DS03 Physical oceanography, DS05 Atmosphere
Keywords: data analysis, data processing, data quality, ocean colour, quality control
Last updated: 21/04/2021
Data Prep Scripts - NASA's Land Processes Distributed Active Archive Center (ODIS id: 1862)
Data Prep Scripts - NASA's Land Processes Distributed Active Archive Center
This collection of R and Python scripts can be used to download data and perform basic data processing functions such as georeferencing, reprojecting, converting, and reformatting data. Scripts are available in Python and/or R and each have a README that provides additional information. All scripts are available for download from the LP DAAC User Resources BitBucket Code Repository.
Data Prep Scripts - NASA's Land Processes Distributed Active Archive Center (ODIS id 1862)
Data Prep Scripts - NASA's Land Processes Distributed Active Archive Center
Original (non-English) name
Acronym
Data Prep Scripts - LP DAAC
Citation
Abstract
This collection of R and Python scripts can be used to download data and perform basic data processing functions such as georeferencing, reprojecting, converting, and reformatting data. Scripts are available in Python and/or R and each have a README that provides additional information. All scripts are available for download from the LP DAAC User Resources BitBucket Code Repository.
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Countries owning the source
Sea Region
Spatial Coverage
Data policy
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Keywords
Themes
DOI's
Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS06 Cross-discipline
Keywords: data processing
Last updated: 21/04/2021
Data Products and Services - Geo-Seas (ODIS id: 2037)
Geological and geophysical data comprise analytical data and data products which are derived from seabed sediment samples, boreholes, borehole samples, geophysical surveys (seismic, gravity, magnetic) of the seabed and sub-seabed, cone penetration tests, and sides can sonar surveys. The data, products and services being delivered by the Geo-Seas project can be used by a number of sectors including: environmental research and monitoring; academic research; government; national and regional agencies; dredging; marine hydrocarbons; beach nourishment; land reclamation; sustainable energy; civil engineering (pipelines, offshore construction, aggregates); communications (submarine cables); shipping; fisheries; and tourism.
As part of Geo-Seas a number of new data products and services have been developed with input from the user consultation that was conducted early in the project. This included an online user survey, conducted from mid December 2009 to June 2010 to learn more about user requirements, followed up by an in-depth user consultation conducted through one-to-one interviews, either in-person or by telephone, and small focus group meetings.
Geo-Seas has developed the following new data products and viewing services, also in crossfertilisation with the on-going SeaDataNet II, One-Geology Europe, EUROFLEETS, EMODNet Geology and EMODNet Hydrography projects:
- Digital Terrain Model and 3D viewing software,
- Digital Terrain Model and 2D viewing service,
- Borehole Viewer software,
- Standardization in seabed habitat mapping.
In addition, a pilot was undertaken for seismic viewing services. However this pilot is discontinued.
Furthermore, OGC standards have been adopted for the distribution and viewing services. These comprise Web Map Services (WMS) and Web Feature Services (WFS), supporting the quick viewing and visualization of data sets and data products.
Data Products and Services - Geo-Seas (ODIS id 2037)
Geological and geophysical data comprise analytical data and data products which are derived from seabed sediment samples, boreholes, borehole samples, geophysical surveys (seismic, gravity, magnetic) of the seabed and sub-seabed, cone penetration tests, and sides can sonar surveys. The data, products and services being delivered by the Geo-Seas project can be used by a number of sectors including: environmental research and monitoring; academic research; government; national and regional agencies; dredging; marine hydrocarbons; beach nourishment; land reclamation; sustainable energy; civil engineering (pipelines, offshore construction, aggregates); communications (submarine cables); shipping; fisheries; and tourism.
As part of Geo-Seas a number of new data products and services have been developed with input from the user consultation that was conducted early in the project. This included an online user survey, conducted from mid December 2009 to June 2010 to learn more about user requirements, followed up by an in-depth user consultation conducted through one-to-one interviews, either in-person or by telephone, and small focus group meetings.
Geo-Seas has developed the following new data products and viewing services, also in crossfertilisation with the on-going SeaDataNet II, One-Geology Europe, EUROFLEETS, EMODNet Geology and EMODNet Hydrography projects:
- Digital Terrain Model and 3D viewing software,
- Digital Terrain Model and 2D viewing service,
- Borehole Viewer software,
- Standardization in seabed habitat mapping.
In addition, a pilot was undertaken for seismic viewing services. However this pilot is discontinued.
Furthermore, OGC standards have been adopted for the distribution and viewing services. These comprise Web Map Services (WMS) and Web Feature Services (WFS), supporting the quick viewing and visualization of data sets and data products.
Technical contact email
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Host institution of the resource
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Sea Region
Spatial Coverage
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Types
Interaction techs
Contributing data to
Obtaining data from
Types: Data products (model output, forecasting products, climatologies, re-analysis, etc), Software (ocean related)
Languages: English
Countries: REGIONAL
Host Countries: REGIONAL
Sea Region: World
Themes: DS04 Marine geology
Keywords: data products, data visualization, geoscience data, mapping, open access
Last updated: 04/07/2021
Data Recipes - Global Hydrometeorology Resource Center (ODIS id: 2005)
Data Recipes - Global Hydrometeorology Resource Center
Tutorials or step-by-step instructions have been developed by GHRC staff to help you learn to discover, visualize and use new data, information, software and techniques. These recipes cover a variety of datasets and processing languages/software.
Data Recipes - Global Hydrometeorology Resource Center (ODIS id 2005)
Data Recipes - Global Hydrometeorology Resource Center
Original (non-English) name
Acronym
Data Recipes - GHRC
Citation
Abstract
Tutorials or step-by-step instructions have been developed by GHRC staff to help you learn to discover, visualize and use new data, information, software and techniques. These recipes cover a variety of datasets and processing languages/software.
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Host institution of the resource
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Countries owning the source
Sea Region
Spatial Coverage
Data policy
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DOI's
Types
Interaction techs
Contributing data to
Obtaining data from
Types: Education and training materials (related to oceans), Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS05 Atmosphere, DS06 Cross-discipline
Keywords: Information and knowledge products, Training and education, data analysis, e-learning, education, knowledge and information
Last updated: 07/06/2021
Data Submission Form - National Snow and Ice Data Center (ODIS id: 1473)
Data Submission Form - National Snow and Ice Data Center
If you are an investigator with data related to the Earth's frozen regions and their role in global climate, you might consider submitting your data to NSIDC.
To this end, we fully credit all data contributors in documentation, metadata, and references, and we encourage data users to formally cite our contributors. We are also willing to hold or restrict data distribution, as appropriate, to address ethical or proprietary considerations or to provide a brief embargo period of exclusive use.
Data Submission Form - National Snow and Ice Data Center (ODIS id 1473)
Data Submission Form - National Snow and Ice Data Center
Original (non-English) name
Acronym
Data Submission Form - NSIDC
Citation
Abstract
If you are an investigator with data related to the Earth's frozen regions and their role in global climate, you might consider submitting your data to NSIDC.
To this end, we fully credit all data contributors in documentation, metadata, and references, and we encourage data users to formally cite our contributors. We are also willing to hold or restrict data distribution, as appropriate, to address ethical or proprietary considerations or to provide a brief embargo period of exclusive use.
Types: Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: United States
Sea Region: World
Themes: DS02 Chemical oceanography, DS03 Physical oceanography, DS04 Marine geology, DS05 Atmosphere
Keywords: Climate change, Data Network, climate, climate data, climate research, climatology, cryosphere, data archive, data collection, data harmonization, data management, data quality, glaciers, ice, sea ice
Last updated: 19/10/2021
Decimal Degree to Degree-Minute-Second and Vice Versa Tool (ODIS id: 3279)
Get the latest breaking news daily, comprehensive in-depth articles, unbiased reviews, and regular features on Freediving, Scuba Diving, Ocean Advocacy, and Diving Travel via the official DeeperBlue.com app.
DeeperBlue.com is one of the premier online destinations for divers. Founded in 1996 we have a thriving community built around those passionate about the underwater world. DeeperBlue.com is far more than just a simple dive blog or forum – the site has strong editorial feature articles, daily news on diving, a thriving forum, user-submitted photo galleries, and a global social media presence.
Some features of the new DeeperBlue.com App are:
• Access the full range of daily DeeperBlue.com diving journalism, specially designed for your Phone or Tablet
• Stay up to date with live news with notifications
• In-depth features covering Freediving, Scuba Diving, Ocean Advocacy, and Diving Travel
• Check out our ultimate guides to diving including our Beginner Guides and Top Dive Sites of the World
• Watch our Video of the Week directly in the app.
• Receive notifications and alerts to stay informed on the underwater world
• Choose what you are interested in
• Read comments on articles and share your own thoughts
• Share stories by email, Whatsapp, and your favorite social media app
• Search our extensive archives directly in the app.
This app is totally free to download and use.
Get the latest breaking news daily, comprehensive in-depth articles, unbiased reviews, and regular features on Freediving, Scuba Diving, Ocean Advocacy, and Diving Travel via the official DeeperBlue.com app.
DeeperBlue.com is one of the premier online destinations for divers. Founded in 1996 we have a thriving community built around those passionate about the underwater world. DeeperBlue.com is far more than just a simple dive blog or forum – the site has strong editorial feature articles, daily news on diving, a thriving forum, user-submitted photo galleries, and a global social media presence.
Some features of the new DeeperBlue.com App are:
• Access the full range of daily DeeperBlue.com diving journalism, specially designed for your Phone or Tablet
• Stay up to date with live news with notifications
• In-depth features covering Freediving, Scuba Diving, Ocean Advocacy, and Diving Travel
• Check out our ultimate guides to diving including our Beginner Guides and Top Dive Sites of the World
• Watch our Video of the Week directly in the app.
• Receive notifications and alerts to stay informed on the underwater world
• Choose what you are interested in
• Read comments on articles and share your own thoughts
• Share stories by email, Whatsapp, and your favorite social media app
• Search our extensive archives directly in the app.
This app is totally free to download and use.
Technical contact email
please check the record details page
Host institution of the resource
Technical notes
Interface Languages
Contributing Countries
Countries owning the source
Sea Region
Spatial Coverage
Data policy
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Keywords
Themes
DOI's
Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: United Kingdom
Sea Region: World
Themes: DS12 Human activities
Keywords: freediving, mobile phone application, ocean advocacy, scuba diving
Last updated: 11/12/2021
Wind, waves and currents shape our coasts. Climate change and rising sea levels add further to this pressure. To enable us to live safely along our shores, we need effective coastal and marine management. Moreover, these coastal processes do not present the only threat. We must also protect ourselves against river and pluvial flooding, while on the other hand we need that water for transport, irrigation, energy, cooling, recreation, environmental protection and as a source of drinking water. Consequently, design and management procedures become more complex and require an integrated approach. In response to this challenge, Deltares has developed a powerful modelling suite called the Delft3D Flexible Mesh Suite, focusing primarily on coastal, estuarine, river, rural and urban environments.
The Delft3D Flexible Mesh Suite (Delft3D FM) is the successor of the structured Delft3D 4 Suite. Like Delft3D 4, the Delft3D FM Suite can simulate storm surges, hurricanes, tsunamis, detailed flows and water levels, waves, sediment transport and morphology, water quality and ecology, and is capable of handling the interactions between these processes. The suite is designed for use by domain experts and non-experts alike, which may range from consultants and engineers or contractors, to regulators and government officials, all of whom are active in one or more of the stages of the design, implementation and management cycle.
Wind, waves and currents shape our coasts. Climate change and rising sea levels add further to this pressure. To enable us to live safely along our shores, we need effective coastal and marine management. Moreover, these coastal processes do not present the only threat. We must also protect ourselves against river and pluvial flooding, while on the other hand we need that water for transport, irrigation, energy, cooling, recreation, environmental protection and as a source of drinking water. Consequently, design and management procedures become more complex and require an integrated approach. In response to this challenge, Deltares has developed a powerful modelling suite called the Delft3D Flexible Mesh Suite, focusing primarily on coastal, estuarine, river, rural and urban environments.
The Delft3D Flexible Mesh Suite (Delft3D FM) is the successor of the structured Delft3D 4 Suite. Like Delft3D 4, the Delft3D FM Suite can simulate storm surges, hurricanes, tsunamis, detailed flows and water levels, waves, sediment transport and morphology, water quality and ecology, and is capable of handling the interactions between these processes. The suite is designed for use by domain experts and non-experts alike, which may range from consultants and engineers or contractors, to regulators and government officials, all of whom are active in one or more of the stages of the design, implementation and management cycle.
This page provides the Jupyter notebooks (examples and exercises) for the DIVAnd user workshops and training sessions organised in the frame of H2020 SeaDataCloud project.
Diva and DIVAnd are software tools designed to generate gridded fields from in-situ observations.
Objectives
The 1st workshop (Liège, 3-6 April 2018) was focused on the creation of gridded products and climatologies using DIVAnd. The organizational details are available.
Within the 2nd SeaDataCloud training course (19-26 June 2019), the objective is to introduce participants to the Julia language, the Jupyter notebooks and the new Virtual Research Environment.
The 2nd workshop (Bologna, 27-30 January 2020) was attended by beginners, intermediate and advanced users, and the goal was to help them create new products with DIVAnd.
Charles Troupin, Alexander Barth, jmbeckers, Sylvain Watelet, & Katrin Leinweber. (2020, April 27). gher-ulg/Diva-Workshops: v1.2 (Version v1.2). Zenodo. http://doi.org/10.5281/zenodo.3769037
Abstract
This page provides the Jupyter notebooks (examples and exercises) for the DIVAnd user workshops and training sessions organised in the frame of H2020 SeaDataCloud project.
Diva and DIVAnd are software tools designed to generate gridded fields from in-situ observations.
Objectives
The 1st workshop (Liège, 3-6 April 2018) was focused on the creation of gridded products and climatologies using DIVAnd. The organizational details are available.
Within the 2nd SeaDataCloud training course (19-26 June 2019), the objective is to introduce participants to the Julia language, the Jupyter notebooks and the new Virtual Research Environment.
The 2nd workshop (Bologna, 27-30 January 2020) was attended by beginners, intermediate and advanced users, and the goal was to help them create new products with DIVAnd.
Technical contact email
please check the record details page
Host institution of the resource
Technical notes
Interface Languages
Contributing Countries
Countries owning the source
Sea Region
Spatial Coverage
Data policy
Metadata standard
Keywords
Themes
DOI's
Types
Interaction techs
Contributing data to
Obtaining data from
Types: Education and training materials (related to oceans), Software (ocean related)
Languages: English
Countries: Belgium
Host Countries: GLOBAL
Sea Region: World
Themes: DS01 Biological oceanography, DS02 Chemical oceanography, DS03 Physical oceanography, DS04 Marine geology, DS05 Atmosphere, DS06 Cross-discipline
Keywords: DIVA, SeaDataNet, data analysis, interpolation, oceanography, python, spatial analysis
Last updated: 29/04/2021
DondeLaViste? App allows you to share information about geolocated sightings of fauna, marine mammals and marine and coastal birds throughout Chile. You can enter online and offline sightings, including photographic record of the event, at any time.
You can learn good practices through tips when making animal sightings, as well as knowing information about the species that inhabit the area.
A network of experts in the identification of marine fauna will validate the sightings, making comments to the users to enrich their experience.
The app is developed jointly by the Institute of Electricity and Electronics of the Austral University of Chile and WWF Chile.
DondeLaViste? App allows you to share information about geolocated sightings of fauna, marine mammals and marine and coastal birds throughout Chile. You can enter online and offline sightings, including photographic record of the event, at any time.
You can learn good practices through tips when making animal sightings, as well as knowing information about the species that inhabit the area.
A network of experts in the identification of marine fauna will validate the sightings, making comments to the users to enrich their experience.
The app is developed jointly by the Institute of Electricity and Electronics of the Austral University of Chile and WWF Chile.
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Countries owning the source
Sea Region
Spatial Coverage
Data policy
Metadata standard
Keywords
Themes
DOI's
Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: Chile
Sea Region: Pacific Ocean
Themes: DS01 Biological oceanography
Keywords: Marine Species, marine mammals, mobile phone application, sightings
Last updated: 11/12/2021
DONIA: Navigate Anchor and Protect (ODIS id: 3194)
DONIA - Enjoy & protect the sea, together!
Free access to cartography of the seabed and up-to-date regulated areas for a safe anchorage. Anchoring in Posidonia meadows is forbidden and punishable by law.
DONIA is a community marine cartography application for smartphones and tablets. It is intended for boaters, yachtsmen, divers, fishermen and all sea lovers who wish to benefit from accurate maps, enriched with data on marine life and real-time information on surface activities.
DONIA is first and foremost a community of enthusiasts who exchange information to make their sea trips easier, richer in discoveries and who want to help protect the environment.
DONIA works and raises awareness of environmental preservation by providing extremely accurate maps of the nature of the seabed, enabling Mediterranean yachtsmen to anchor outside sensitive ecosystems such as Posidonia meadows and coralligenous reefs. The application provides access to various navigation data and functionalities such as regulatory and navigation tools (port information, anchorages, dive sites, heading and arrow for prediction of time, speed, waypoints and measurement tools, navigation) and safety at sea (skid, entanglement and collision alarm pack); AIS (Automatic Identification System) data from the AISHUb network; weather forecasts every 3 hours up to + 72 hours; sheltered anchorage areas depending on the weather, community tools, local regulations..
DONIA also means greater safety on board, whether sailing or motoring. The application proposes to live the traditional maritime solidarity by sharing your anchorage spots, information on biodiversity, dangers seen at sea (obstacles, accidents, jellyfish, etc.).
Finally, DONIA users can receive free information from managers of protected sites (parks, reserves). Practical to avoid tedious procedures and find local regulations easily.
The Premium version of the application (€ 24.99 per year, € 2.99 per month) gives access to high-definition bathymetric maps allowing you to find new points of interest and marine maps from SHOM (Hydrographic and Oceanographic Service of la Marine) in the French Mediterranean.
Please note that continuous use of GPS in the background may reduce battery life.
Conditions of use: https://donia.fr/cgu/cgv_en.html
The Community application for navigation and anchoring assistance outside fragile ecosystems DONIA is available and used in the Mediterranean.
DONIA - Enjoy & protect the sea, together!
Free access to cartography of the seabed and up-to-date regulated areas for a safe anchorage. Anchoring in Posidonia meadows is forbidden and punishable by law.
DONIA is a community marine cartography application for smartphones and tablets. It is intended for boaters, yachtsmen, divers, fishermen and all sea lovers who wish to benefit from accurate maps, enriched with data on marine life and real-time information on surface activities.
DONIA is first and foremost a community of enthusiasts who exchange information to make their sea trips easier, richer in discoveries and who want to help protect the environment.
DONIA works and raises awareness of environmental preservation by providing extremely accurate maps of the nature of the seabed, enabling Mediterranean yachtsmen to anchor outside sensitive ecosystems such as Posidonia meadows and coralligenous reefs. The application provides access to various navigation data and functionalities such as regulatory and navigation tools (port information, anchorages, dive sites, heading and arrow for prediction of time, speed, waypoints and measurement tools, navigation) and safety at sea (skid, entanglement and collision alarm pack); AIS (Automatic Identification System) data from the AISHUb network; weather forecasts every 3 hours up to + 72 hours; sheltered anchorage areas depending on the weather, community tools, local regulations..
DONIA also means greater safety on board, whether sailing or motoring. The application proposes to live the traditional maritime solidarity by sharing your anchorage spots, information on biodiversity, dangers seen at sea (obstacles, accidents, jellyfish, etc.).
Finally, DONIA users can receive free information from managers of protected sites (parks, reserves). Practical to avoid tedious procedures and find local regulations easily.
The Premium version of the application (€ 24.99 per year, € 2.99 per month) gives access to high-definition bathymetric maps allowing you to find new points of interest and marine maps from SHOM (Hydrographic and Oceanographic Service of la Marine) in the French Mediterranean.
Please note that continuous use of GPS in the background may reduce battery life.
Conditions of use: https://donia.fr/cgu/cgv_en.html
The Community application for navigation and anchoring assistance outside fragile ecosystems DONIA is available and used in the Mediterranean.
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Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: France
Sea Region: Mediterranean Sea
Themes: DS04 Marine geology, DS07 Administration and dimensions, DS12 Human activities
Keywords: marine cartography, mobile phone application, posidonia oceanica, regulated areas, safe anchorage, sea grass, seabed mapping, sensitive ecosystems
Last updated: 11/12/2021
Module for FreeCAD intended to use with DualSPHysics fluid simulator.
DesignSPHysics is a software module built into FreeCAD that provides a Graphical User Interface for DualSPHysics. It is under development since September 2016 and in Beta stage.
Check the Official Webpage for downloads and more information.
Module for FreeCAD intended to use with DualSPHysics fluid simulator.
DesignSPHysics is a software module built into FreeCAD that provides a Graphical User Interface for DualSPHysics. It is under development since September 2016 and in Beta stage.
Check the Official Webpage for downloads and more information.
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Contributing data to
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Types: Software (ocean related)
Languages: English
Countries: Spain
Host Countries: Spain
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: fluids, freecad, python, simulator
Last updated: 02/05/2021
Kriging is a technique that provides the Best Linear Unbiased Estimator of the unknown fields (Journel and Huijbregts, 1978; Kitanidis, 1997). It is a local estimator that can provide the interpolation and extrapolation of the originally sparsely sampled data that are assumed to be reasonably characterized by the Intrinsic Statistical Model (ISM). An ISM does not require the quantity of interest to be stationary, i.e. its mean and standard deviation are independent of position, but rather that its covariance function depends on the separation of two data points only.
The kriging software described in this document was developed by Dezhang Chu with funding from the National Science Foundation through the U.S. GLOBEC Georges Bank Project's Program Service and Data Management Office. It was originally inspired by a MATLAB toolbox developed by Yves Gratton and Caroline Lafleur (INRS-Oceanologie, Rimouski, Qc, Canada), and Jeff Runge (Institut Maurice-Lamontagne, now with University of New Hampshire). This software may be reproduced for noncommercial purposes only.
EasyKrig GLOBEC Kriging Software Package (ODIS id 1781)
Kriging is a technique that provides the Best Linear Unbiased Estimator of the unknown fields (Journel and Huijbregts, 1978; Kitanidis, 1997). It is a local estimator that can provide the interpolation and extrapolation of the originally sparsely sampled data that are assumed to be reasonably characterized by the Intrinsic Statistical Model (ISM). An ISM does not require the quantity of interest to be stationary, i.e. its mean and standard deviation are independent of position, but rather that its covariance function depends on the separation of two data points only.
The kriging software described in this document was developed by Dezhang Chu with funding from the National Science Foundation through the U.S. GLOBEC Georges Bank Project's Program Service and Data Management Office. It was originally inspired by a MATLAB toolbox developed by Yves Gratton and Caroline Lafleur (INRS-Oceanologie, Rimouski, Qc, Canada), and Jeff Runge (Institut Maurice-Lamontagne, now with University of New Hampshire). This software may be reproduced for noncommercial purposes only.
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Types
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Contributing data to
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Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS06 Cross-discipline
Keywords: global analysis
Last updated: 02/05/2021
Simple oceanographic data viewing based on aodn/imostoolbox.
The aim of easyplot is to deliver a simple to use program to plot and easily compare instrument data for diagnostic purposes. It is utilizes instrument parsers from imos-toolbox (https://github.com/aodn/imos-toolbox)
Simple oceanographic data viewing based on aodn/imostoolbox.
The aim of easyplot is to deliver a simple to use program to plot and easily compare instrument data for diagnostic purposes. It is utilizes instrument parsers from imos-toolbox (https://github.com/aodn/imos-toolbox)
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Types: Software (ocean related)
Languages: English
Countries: Australia
Host Countries: Australia
Sea Region: World
Themes: DS02 Chemical oceanography, DS03 Physical oceanography
Keywords: data visualization, matlab, oceanographic data, oceanography, time-series
Last updated: 18/12/2021
Ecopath with Ecosim (ODIS id: 1097)
https://ecopath.org/downloads
Ecopath with Ecosim or EwE is an open-source and freely available food web modelling approach with o ...
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Ecopath with Ecosim
Ecopath with Ecosim or EwE is an open-source and freely available food web modelling approach with over 1000 peer-reviewed publications and an estimated 9000 users world-wide.
Christensen, V., and Walters, C.J. (2004). Ecopath with Ecosim: methods, capabilities and limitations. Ecological Modelling 172, 109–139.
Heymans, J.J., Coll, M., Link, J.S., Mackinson, S., Steenbeek, J., and Christensen, V. (2016). Best practice in Ecopath with Ecosim food-web models for ecosystem-based management. Ecological Modelling 331, 173–184.
Abstract
Ecopath with Ecosim or EwE is an open-source and freely available food web modelling approach with over 1000 peer-reviewed publications and an estimated 9000 users world-wide.
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Steenbeek, J., Buszowski, J., Christensen, V., Akoglu, E., Aydin, K., Ellis, N., Felinto, D., Guitton, J., Lucey, S., Kearney, K., et al. (2016). Ecopath with Ecosim as a model-building toolbox: Source code capabilities, extensions, and variations. Ecological Modelling 319, 178–189.
Interface Languages
Contributing Countries
Countries owning the source
Sea Region
Spatial Coverage
Case-study dependent
Data policy
Metadata standard
Keywords
Themes
DOI's
Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: GLOBAL
Sea Region: World
Themes: DS10 Environment, DS11 Fisheries and aquaculture, DS12 Human activities
Keywords: ecosystem understanding, environmental impact assessment, fisheries, food-web dynamics, marine ecology
Last updated: 14/03/2023
Ecosystem Approach to Fisheries Application - FAO (ODIS id: 1053)
The EAFnet has been developed to facilitate access to the information and resources that are available at FAO on the application of the Ecosystem Approach to Fisheries (EAF).
This includes background information about EAF, the EAF toolbox to assist with EAF management planning and implementation, plus links to all the various EAF projects being undertaken by FAO.
The Ecosystem Approach to Fisheries (EAF) has been adopted by the FAO Committee on Fisheries (COFI) as the appropriate and practical way to fully implement the Code of Conduct for Responsible Fisheries.
EAF is a risk based management planning process that covers the principles of Sustainable Development including the human and social elements of sustainability, not just the ecological and environmental components.
Ecosystem Approach to Fisheries Application - FAO (ODIS id 1053)
The EAFnet has been developed to facilitate access to the information and resources that are available at FAO on the application of the Ecosystem Approach to Fisheries (EAF).
This includes background information about EAF, the EAF toolbox to assist with EAF management planning and implementation, plus links to all the various EAF projects being undertaken by FAO.
The Ecosystem Approach to Fisheries (EAF) has been adopted by the FAO Committee on Fisheries (COFI) as the appropriate and practical way to fully implement the Code of Conduct for Responsible Fisheries.
EAF is a risk based management planning process that covers the principles of Sustainable Development including the human and social elements of sustainability, not just the ecological and environmental components.
Types: Information on projects, Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: GLOBAL
Sea Region: World
Themes: DS11 Fisheries and aquaculture
Keywords: EAF management planning, Ecosystem Approach, Ecosystem Approach to Fisheries, Responsible Fisheries, fisheries, information and resources, sustainable development
Last updated: 09/10/2021
Environmental Data Connector - NOAA CoastWatch West Coast Regional Node (ODIS id: 2851)
Environmental Data Connector - NOAA CoastWatch West Coast Regional Node
The Environmental Data Connector (EDC) is a Java-based Graphical User Interface that allows for easy access to distributed data from directly within ArcGIS, Matlab, R and, for Windows only, Excel. The EDC can access data served by OPeNDAP, THREDDS, ERDDAP, IOOS SOS and also local files. Users can search for and graphically select custom temporal and spatial data subsets, and then automatically download the subsets into the software application. The EDC can also extract data from within a user drawn polygon and along ship or animal tracks.
The EDC was created by Applied Science Associates, Inc. in cooperation with the SWFSC's Environmental Research Division, using funds from the NOAA Satellite Research & Operations Project, the NOAA Integrated Ecosystem Assessment Program, the NOAA IOOS Program Office, and the NOAA JPSS PGRR Program.
Environmental Data Connector - NOAA CoastWatch West Coast Regional Node (ODIS id 2851)
Environmental Data Connector - NOAA CoastWatch West Coast Regional Node
Original (non-English) name
Acronym
EDC - WCRN
Citation
Abstract
The Environmental Data Connector (EDC) is a Java-based Graphical User Interface that allows for easy access to distributed data from directly within ArcGIS, Matlab, R and, for Windows only, Excel. The EDC can access data served by OPeNDAP, THREDDS, ERDDAP, IOOS SOS and also local files. Users can search for and graphically select custom temporal and spatial data subsets, and then automatically download the subsets into the software application. The EDC can also extract data from within a user drawn polygon and along ship or animal tracks.
The EDC was created by Applied Science Associates, Inc. in cooperation with the SWFSC's Environmental Research Division, using funds from the NOAA Satellite Research & Operations Project, the NOAA Integrated Ecosystem Assessment Program, the NOAA IOOS Program Office, and the NOAA JPSS PGRR Program.
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: Pacific Ocean
Themes: DS01 Biological oceanography, DS02 Chemical oceanography, DS03 Physical oceanography, DS10 Environment
Keywords: data access, data and tools, environmental data
Last updated: 06/11/2021
Environmental Modeling Center Code Repository - NOAA (ODIS id: 1791)
https://github.com/NOAA-EMC
We develop numerical forecast systems and enhance numerical forecasts through numerical computationa ...
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Environmental Modeling Center Code Repository - NOAA
We develop numerical forecast systems and enhance numerical forecasts through numerical computational technology and data assimilation techniques.
Environmental Modeling Center Code Repository - NOAA (ODIS id 1791)
Environmental Modeling Center Code Repository - NOAA
Original (non-English) name
Acronym
EMC Code Repository - NOAA
Citation
Abstract
We develop numerical forecast systems and enhance numerical forecasts through numerical computational technology and data assimilation techniques.
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Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: Modelling, computer science, data analysis, data assimilation, fortran, interpolation, python
Last updated: 06/05/2021
R to analyse ecological and environmental data.
The base version of R ships with a wide range of functions for use within the field of environmetrics. This functionality is complemented by a plethora of packages available via CRAN, which provide specialist methods such as ordination & cluster analysis techniques. A brief overview of the available packages is provided in this Task View, grouped by topic or type of analysis. As a testament to the popularity of R for the analysis of environmental and ecological data, a special volume of the Journal of Statistical Software was produced in 2007.
Those useRs interested in environmetrics should consult the Spatial view. Complementary information is also available in the Multivariate, Phylogenetics, Cluster, and SpatioTemporal task views.
If you have any comments or suggestions for additions or improvements, then please contact the maintainer .
A list of available packages and functions is presented below, grouped by analysis type.
R to analyse ecological and environmental data.
The base version of R ships with a wide range of functions for use within the field of environmetrics. This functionality is complemented by a plethora of packages available via CRAN, which provide specialist methods such as ordination & cluster analysis techniques. A brief overview of the available packages is provided in this Task View, grouped by topic or type of analysis. As a testament to the popularity of R for the analysis of environmental and ecological data, a special volume of the Journal of Statistical Software was produced in 2007.
Those useRs interested in environmetrics should consult the Spatial view. Complementary information is also available in the Multivariate, Phylogenetics, Cluster, and SpatioTemporal task views.
If you have any comments or suggestions for additions or improvements, then please contact the maintainer .
A list of available packages and functions is presented below, grouped by analysis type.
Technical contact email
please check the record details page
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Countries owning the source
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Data policy
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Keywords
Themes
DOI's
Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: United Kingdom
Host Countries: United Kingdom
Sea Region: World
Themes: DS01 Biological oceanography
Keywords: ecological analysis, ecological applications, multivariate analysis, r-package
Last updated: 15/05/2021
eOceans was founded with the belief that future oceans can teem with life if we make faster and more collaborative discoveries. This app helps make this possible.
The eOceans app is for citizen scientists, scientists, and teams exploring and studying the world’s oceans.
This app captures ‘logs’ about the oceans in real-time. A ‘log’ takes about 30 seconds and captures enormous amounts of valuable data about the oceans, which is already helping ocean science and decision making.
Value:
- Record your observations once, keep for later instantly share to scientists you trust
- Digitize & quality control in real-time, for faster and more accurate data
- Local to global scales
- All 220,000 named ocean species
- All human items
As featured in peer-reviewed scientific publications, various science programs, major news outlets, and used by explorers around the world. Results have already informed international policies to protect endangered species and special places, and the people that depend on them.
Useful for:
Protected areas; Endangered species; Invasive species; Climate change; Pollution; Ghost gear; Oil spills; Algal blooms; Social and economic trends; Shipping or fishing interactions; Management disputes; Disease; Interactions; and much more.
It works like this:
Explore the oceans with the eOceans app loaded on your phone. Periodically (5 or more times), do a ‘log’ of what you see. A Log includes:
i) Photo of the area or item.
ii) Activity you are doing – because fishers, divers, surfers, sailors , etc. see very different things.
iii) List of species, with number. It can be zero, or a long list.
iv) Any human stuff – boats, surfers, plastics, etc.
v) Review & Submit.
The app is designed for collecting high-resolution spatial and temporal data about the world’s oceans. Helping to identify and celebrate successes, or to mitigate and adapt to change.
PROFESSIONAL is designed for people, like scientists, that need digitized and quality-control their data in real-time in a spreadsheet format that they can immediately analyze or share with colleagues.
STARTER is designed for people, like citizen scientists, that want to share their observations to science.
ENTERPRISE is for teams, like research labs, industry, government, non-governmental organizations, that have several to thousands of people working on a specific topic or area that want to collaborate in real-time.
Our goal is to gather 1billion new ocean observations per day so that researchers and communities can celebrate successes or mitigate and adapt to change in real-time.
For the oceans. For us.
eOceans was founded with the belief that future oceans can teem with life if we make faster and more collaborative discoveries. This app helps make this possible.
The eOceans app is for citizen scientists, scientists, and teams exploring and studying the world’s oceans.
This app captures ‘logs’ about the oceans in real-time. A ‘log’ takes about 30 seconds and captures enormous amounts of valuable data about the oceans, which is already helping ocean science and decision making.
Value:
- Record your observations once, keep for later instantly share to scientists you trust
- Digitize & quality control in real-time, for faster and more accurate data
- Local to global scales
- All 220,000 named ocean species
- All human items
As featured in peer-reviewed scientific publications, various science programs, major news outlets, and used by explorers around the world. Results have already informed international policies to protect endangered species and special places, and the people that depend on them.
Useful for:
Protected areas; Endangered species; Invasive species; Climate change; Pollution; Ghost gear; Oil spills; Algal blooms; Social and economic trends; Shipping or fishing interactions; Management disputes; Disease; Interactions; and much more.
It works like this:
Explore the oceans with the eOceans app loaded on your phone. Periodically (5 or more times), do a ‘log’ of what you see. A Log includes:
i) Photo of the area or item.
ii) Activity you are doing – because fishers, divers, surfers, sailors , etc. see very different things.
iii) List of species, with number. It can be zero, or a long list.
iv) Any human stuff – boats, surfers, plastics, etc.
v) Review & Submit.
The app is designed for collecting high-resolution spatial and temporal data about the world’s oceans. Helping to identify and celebrate successes, or to mitigate and adapt to change.
PROFESSIONAL is designed for people, like scientists, that need digitized and quality-control their data in real-time in a spreadsheet format that they can immediately analyze or share with colleagues.
STARTER is designed for people, like citizen scientists, that want to share their observations to science.
ENTERPRISE is for teams, like research labs, industry, government, non-governmental organizations, that have several to thousands of people working on a specific topic or area that want to collaborate in real-time.
Our goal is to gather 1billion new ocean observations per day so that researchers and communities can celebrate successes or mitigate and adapt to change in real-time.
For the oceans. For us.
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Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: GLOBAL
Sea Region: World
Themes: DS06 Cross-discipline
Keywords: Algal bloom, Climate change, marine protected areas, mobile phone application, oceans, shipping
Last updated: 13/12/2021
European Centre for Medium-Range Weather Forecasts software repository (ODIS id: 1792)
European Centre for Medium-Range Weather Forecasts software repository
The following software packages are available from ECMWF's collaborative website. Member and Co-operating States' national meteorological services should first check with Software Services for availability of additional software.
European Centre for Medium-Range Weather Forecasts software repository (ODIS id 1792)
European Centre for Medium-Range Weather Forecasts software repository
Original (non-English) name
Acronym
ECMWF software repository
Citation
Abstract
The following software packages are available from ECMWF's collaborative website. Member and Co-operating States' national meteorological services should first check with Software Services for availability of additional software.
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Countries owning the source
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Data policy
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Keywords
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DOI's
Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: REGIONAL
Host Countries: REGIONAL
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: Modelling, forecasting system, numerical models
Last updated: 06/05/2021
Fast smoothing spline routine in Fortran 90 usable in python
A Matlab script (Weinert, 2009) was converted to Fortran 90 for improved computational speed. The arguments are identical in both the Fotran 90 and Matlab routines.
Fast smoothing spline routine in Fortran 90 usable in python
A Matlab script (Weinert, 2009) was converted to Fortran 90 for improved computational speed. The arguments are identical in both the Fotran 90 and Matlab routines.
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Types
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Contributing data to
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Types: Software (ocean related)
Languages: English
Countries: France
Host Countries: France
Sea Region: World
Themes: DS02 Chemical oceanography
Keywords: fortran, matlab, spline
Last updated: 09/05/2021
Functional Data Analysis of oceanographic profiles.
Functional Data Analysis is a set of tools to study curves or functions. Here we see vertical hydrographic profiles of several variables (temperature, salinity, oxygen,...) as curves and apply a functional principal component analysis (FPCA) in the multivaraite case to reduce the dimensionality of the system. The classical case is done with couples of temperature and salinity. It can be used for front detection, water mass identification, unsupervised or supervised classification, model comparison, data calibration, etc.
Etienne Pauthenet, David Nerini, & Fabien Roquet. (2020, October 8). Functional Data Analysis of hydrographic profiles (Version v1.0.0). Zenodo. http://doi.org/10.5281/zenodo.4073123
Abstract
Functional Data Analysis of oceanographic profiles.
Functional Data Analysis is a set of tools to study curves or functions. Here we see vertical hydrographic profiles of several variables (temperature, salinity, oxygen,...) as curves and apply a functional principal component analysis (FPCA) in the multivaraite case to reduce the dimensionality of the system. The classical case is done with couples of temperature and salinity. It can be used for front detection, water mass identification, unsupervised or supervised classification, model comparison, data calibration, etc.
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Interface Languages
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Countries owning the source
Sea Region
Spatial Coverage
Data policy
Metadata standard
Keywords
Themes
DOI's
Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: France
Host Countries: France
Sea Region: World
Themes: DS02 Chemical oceanography, DS03 Physical oceanography
Keywords: data analysis, matlab, oceanographic research, oceanography, r-package
Last updated: 01/05/2021
The NOAA Fisheries Integrated Toolbox (NOAA FIT) is an interdisciplinary, web-based portal of operational tools that can be used for a variety of applications, including stock assessment modeling, forecasting, and data preparation for fish and protected species, as well as economic and ecosystem modeling. This web portal facilitates easier sharing and comparison of analytical tools (including ensemble modeling, model averaging, model coupling, and shared visualization). The NOAA FIT hosts a variety of operational tools developed by NOAA scientists and programmers, as well as those developed in collaboration with, and exclusively by external developers. The NOAA FIT is maintained by the National Modeling Team in NOAA Fisheries Office of Science and Technology. The National Modeling Team supports scientists, developers, and users to facilitate accessibility and efficient usage of software and tools. The NOAA FIT also provides resources for developers and users of the tools to ensure best practices and ease of use.
Fisheries Integrated Toolbox - NOAA (ODIS id 1859)
The NOAA Fisheries Integrated Toolbox (NOAA FIT) is an interdisciplinary, web-based portal of operational tools that can be used for a variety of applications, including stock assessment modeling, forecasting, and data preparation for fish and protected species, as well as economic and ecosystem modeling. This web portal facilitates easier sharing and comparison of analytical tools (including ensemble modeling, model averaging, model coupling, and shared visualization). The NOAA FIT hosts a variety of operational tools developed by NOAA scientists and programmers, as well as those developed in collaboration with, and exclusively by external developers. The NOAA FIT is maintained by the National Modeling Team in NOAA Fisheries Office of Science and Technology. The National Modeling Team supports scientists, developers, and users to facilitate accessibility and efficient usage of software and tools. The NOAA FIT also provides resources for developers and users of the tools to ensure best practices and ease of use.
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Themes
DOI's
Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS01 Biological oceanography, DS11 Fisheries and aquaculture
Keywords: data preparation, operationl tools, protected species, tool description, toolbox
Last updated: 09/05/2021
The FAO Fisheries Division (NFI) provides advice and objective information to Members to help promote responsible aquaculture and fisheries. To fulfil this role, the Division compiles, analyses and disseminates fishery and aquaculture data, structured within data collections.
To ensure quality assurance, each collection is documented to highlight definitions and to specify the structure, sources, coverage, processes, intended use, etc. This is further complemented with the CWP Handbook of Fisheries Statistics, which includes comprehensive definitions of concepts and details of standard classifications.
Global time series have been maintained over more than 60 years. To meet diverse user needs, data from each statistical collection are available through various formats, tools and information products.
Fishery Statistics Programme - FAO Fisheries Division (ODIS id 1049)
The FAO Fisheries Division (NFI) provides advice and objective information to Members to help promote responsible aquaculture and fisheries. To fulfil this role, the Division compiles, analyses and disseminates fishery and aquaculture data, structured within data collections.
To ensure quality assurance, each collection is documented to highlight definitions and to specify the structure, sources, coverage, processes, intended use, etc. This is further complemented with the CWP Handbook of Fisheries Statistics, which includes comprehensive definitions of concepts and details of standard classifications.
Global time series have been maintained over more than 60 years. To meet diverse user needs, data from each statistical collection are available through various formats, tools and information products.
FIGIS.
How to access the data:
1) FishStatJ - Software for fishery statistical time series offers experts and scientists a stand-alone application for complex and sophisticated data exploration and extraction.
2) Online Query Panels enable advanced users to extract customized information and reports.
3) FAO Yearbook of Fishery and Aquaculture Statistics provide a full range of tables with detailed statistics.
Interface Languages
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Types: Data products (model output, forecasting products, climatologies, re-analysis, etc), Information on projects, Maps and atlases (geospatial products), Software (ocean related)
Languages: Arabic, English, Spanish, French, Russian, Chinese
Countries: GLOBAL
Host Countries: GLOBAL
Sea Region: World
Themes: DS11 Fisheries and aquaculture
Keywords: Responsible Fisheries, Responsible aquaculture, aquaculture, aquaculture statistics, fisheries, fisheries statistics, time-series
Last updated: 09/10/2021
Adding stock-recruit parameter estimates based on stock-recruit records from the RAM Legacy stock-recruit database. The addition of stock-recruit parameters completes the full life-cycle for fishes, and then allows population-dynamics parameters (generation time, intrinsic growth rate) to be calculated.
Adding stock-recruit parameter estimates based on stock-recruit records from the RAM Legacy stock-recruit database. The addition of stock-recruit parameters completes the full life-cycle for fishes, and then allows population-dynamics parameters (generation time, intrinsic growth rate) to be calculated.
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Types: Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: GLOBAL
Sea Region: World
Themes: DS01 Biological oceanography
Keywords: Fish, data analysis, ecological applications, ecology, population dynamics, prediction
Last updated: 22/04/2021
FLEXible PARTicle Dispersion model (ODIS id: 1793)
https://www.flexpart.eu/
FLEXPART (“FLEXible PARTicle dispersion model”) is a Lagrangian transport and dispersion model s ...
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FLEXible PARTicle Dispersion model
FLEXPART (“FLEXible PARTicle dispersion model”) is a Lagrangian transport and dispersion model suitable for the simulation of a large range of atmospheric transport processes. Apart from transport and turbulent diffusion, it is able to simulate dry and wet deposition, decay, linear chemistry; it can be used in forward or backward mode, with defined sources or in a domain-filling setting. It can be used from local to global scale.
FLEXPART is a further development of its predecessor FLEXTRA (“FLEXible TRAjectory model”). Both FLEXTRA and FLEXPART have been open source models since the beginning and, over time have found a large international user community.
FLEXPART (“FLEXible PARTicle dispersion model”) is a Lagrangian transport and dispersion model suitable for the simulation of a large range of atmospheric transport processes. Apart from transport and turbulent diffusion, it is able to simulate dry and wet deposition, decay, linear chemistry; it can be used in forward or backward mode, with defined sources or in a domain-filling setting. It can be used from local to global scale.
FLEXPART is a further development of its predecessor FLEXTRA (“FLEXible TRAjectory model”). Both FLEXTRA and FLEXPART have been open source models since the beginning and, over time have found a large international user community.
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Types: Software (ocean related)
Languages: English
Countries: Austria
Host Countries: Austria
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: Modelling, dispersion, lagrangian transport, numerical models
Last updated: 06/05/2021
The FluxEngine is an open-source software toolbox for calculating atmosphere-ocean gas fluxes. The toolbox allows users to easily generate global and regional air-sea carbon dioxide flux data from model, in situ and Earth Observation data, and its air-sea gas flux calculation is user configurable. Whilst devloped for carbon dioxide, much of the toolbox is applicable to other gases ans the open-source nature of the toolbox enables it to be easily extended. Please note that the FluxEngine is a beta version and see the disclaimer at the bottom of this page.
Shutler JD, Land PE, Piolle J-F, Woolf DK, Goddijn-Murphy L, Paul F, Girard-Ardhuin F, Chapron B, Donlon CJ (2016), FluxEngine: a flexible processing system for calculating atmosphere-ocean carbon dioxide gas fluxes and climatologies, Journal of Atmospheric and Oceanic Technology, doi: 10.1175/JTECH-D-14-00204.1
Abstract
The FluxEngine is an open-source software toolbox for calculating atmosphere-ocean gas fluxes. The toolbox allows users to easily generate global and regional air-sea carbon dioxide flux data from model, in situ and Earth Observation data, and its air-sea gas flux calculation is user configurable. Whilst devloped for carbon dioxide, much of the toolbox is applicable to other gases ans the open-source nature of the toolbox enables it to be easily extended. Please note that the FluxEngine is a beta version and see the disclaimer at the bottom of this page.
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Types: Software (ocean related)
Languages: English
Countries: REGIONAL
Host Countries: REGIONAL
Sea Region: World
Themes: DS02 Chemical oceanography, DS03 Physical oceanography, DS05 Atmosphere
Keywords: atmosphere-ocean gas fluxes, data analysis, python
Last updated: 26/04/2021
fmiopendata - Finnish Meteorological Institute (ODIS id: 1881)
FUNWAVE–TVD is the Total Variation Diminishing (TVD) version of the fully nonlinear Boussinesq wave model (FUNWAVE) developed by Shi et al. (2012). The FUNWAVE model was initially developed by Kirby et al. (1998) based on Wei et al. (1995). The development of the present version was motivated by recent needs for modeling of surfzone–scale optical properties in a Boussinesq model framework, and modeling of Tsunami waves in both a global/coastal scale for prediction of coastal inundation and a basin scale for wave propagation.
FUNWAVE–TVD is the Total Variation Diminishing (TVD) version of the fully nonlinear Boussinesq wave model (FUNWAVE) developed by Shi et al. (2012). The FUNWAVE model was initially developed by Kirby et al. (1998) based on Wei et al. (1995). The development of the present version was motivated by recent needs for modeling of surfzone–scale optical properties in a Boussinesq model framework, and modeling of Tsunami waves in both a global/coastal scale for prediction of coastal inundation and a basin scale for wave propagation.
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Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: Modelling, coastal inundation, fully nonlinear Boussinesq wave model, matlab, numerical models, numerical simulations, python, surfzone, tsunami, wave propagation, waves
Last updated: 04/05/2021
The Unstructured Grid Finite Volume Community Ocean Model (FVCOM) is a prognostic, unstructured-grid, finite-volume, free-surface, 3-D primitive equation coastal ocean circulation model developed by UMASSD-WHOI joint efforts. The model consists of momentum, continuity, temperature, salinity and density equations and is closed physically and mathematically using turbulence closure submodels. The horizontal grid is comprised of unstructured triangular cells and the irregular bottom is preseented using generalized terrain-following coordinates. The General Ocean Turbulent Model (GOTM) developed by Burchard’s research group in Germany (Burchard, 2002) has been added to FVCOM to provide optional vertical turbulent closure schemes. FVCOM is solved numerically by a second-order accurate discrete flux calculation in the integral form of the governing equations over an unstructured triangular grid. This approach combines the best features of finite-element methods (grid flexibility) and finite-difference methods (numerical efficiency and code simplicity) and provides a much better numerical representation of both local and global momentum, mass, salt, heat, and tracer conservation. The ability of FVCOM to accurately solve scalar conservation equations in addition to the topological flexibility provided by unstructured meshes and the simplicity of the coding structure has make FVCOM ideally suited for many coastal and interdisciplinary scientific applications.
FVCOM was originally developed for the estuarine flooding/drying process in estuaries and the tidal-, buoyancy- and wind-driven circulation in the coastal region featured with complex irregular geometry and steep bottom topography. This model has been upgraded to the spherical coordinate system for basin and global applications. A non-hydrostatic version of FVCOM has been coded and is being tested.
The Unstructured Grid Finite Volume Community Ocean Model (FVCOM) is a prognostic, unstructured-grid, finite-volume, free-surface, 3-D primitive equation coastal ocean circulation model developed by UMASSD-WHOI joint efforts. The model consists of momentum, continuity, temperature, salinity and density equations and is closed physically and mathematically using turbulence closure submodels. The horizontal grid is comprised of unstructured triangular cells and the irregular bottom is preseented using generalized terrain-following coordinates. The General Ocean Turbulent Model (GOTM) developed by Burchard’s research group in Germany (Burchard, 2002) has been added to FVCOM to provide optional vertical turbulent closure schemes. FVCOM is solved numerically by a second-order accurate discrete flux calculation in the integral form of the governing equations over an unstructured triangular grid. This approach combines the best features of finite-element methods (grid flexibility) and finite-difference methods (numerical efficiency and code simplicity) and provides a much better numerical representation of both local and global momentum, mass, salt, heat, and tracer conservation. The ability of FVCOM to accurately solve scalar conservation equations in addition to the topological flexibility provided by unstructured meshes and the simplicity of the coding structure has make FVCOM ideally suited for many coastal and interdisciplinary scientific applications.
FVCOM was originally developed for the estuarine flooding/drying process in estuaries and the tidal-, buoyancy- and wind-driven circulation in the coastal region featured with complex irregular geometry and steep bottom topography. This model has been upgraded to the spherical coordinate system for basin and global applications. A non-hydrostatic version of FVCOM has been coded and is being tested.
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Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: Coastal zone, Floods, Modelling, Numerical model prediction, coastal ocean circulation, numerical models, numerical simulations, turbulence closure submodels
Last updated: 04/05/2021
Access to the services and VREs operated by both the BlueBRIDGE consortium and the iMarine initiative to serve cases ranging from stock assessment to aquaculture atlas generation, strategic investment and scientific training. Datasets include species distribution maps, environmental data, and area regulation zones.
All the products are accompanied with rich descriptions capturing general attributes, e.g. title and creator(s), as well as usage policies and licences.
Access to the services and VREs operated by both the BlueBRIDGE consortium and the iMarine initiative to serve cases ranging from stock assessment to aquaculture atlas generation, strategic investment and scientific training. Datasets include species distribution maps, environmental data, and area regulation zones.
All the products are accompanied with rich descriptions capturing general attributes, e.g. title and creator(s), as well as usage policies and licences.
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iMarine.D4Science
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Types: Data catalogue, Education and training materials (related to oceans), Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: GLOBAL
Sea Region: World
Themes: DS11 Fisheries and aquaculture
Keywords: Virtual Research Environment, data analysis, data and information, scientific training
Last updated: 04/07/2021
General Ocean Turbulent Model (ODIS id: 2434)
https://gotm.net/about/
Welcome to the General Ocean Turbulence Model (GOTM), which is a one-dimensional water column model ...
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General Ocean Turbulent Model
Welcome to the General Ocean Turbulence Model (GOTM), which is a one-dimensional water column model for studying hydrodynamic and biogeochemical processes in marine and limnic waters. GOTM is published under the GNU Public Licence and can be freely used.
The heart of GOTM is a library of traditional and state-of-the-art turbulence closure models for the parameterisation of vertical turbulent fluxes of momentum, heat and dissolved and particulate matter (Umlauf and Burchard, 2005). This turbulence module has been linked to, or recoded for, a number of ocean models such as ROMS, FVCOM, SELFE, FESOM, GETM and NEMO in order to parameterize turbulent exchange.
Typically, GOTM is used as a stand-alone model for studying dynamics of boundary layers in natural waters, where lateral gradients can either be neglected or prescribed. Frequent hydrodynamic applications are investigations of air-sea fluxes, surface mixed-layer dynamics, stratification processes in shelf seas, dynamics of bottom boundary layers with or without sediment transport, estuarine and coastal dynamics, and many more. To link biogeochemical or sediment modules to GOTM, the Framework for Aquatic Biogeochemical Models (FABM) (Bruggeman and Bolding, 2014) is used, which is also available for several 3D models.
The GOTM developers encourage all users to subscribe to the GOTM Users email list to interact with all other users, to report about planned applications, to announce new results, and to discuss possible extensions. Users wanting to participate in development can apply for access to the developers mailing list here.
Welcome to the General Ocean Turbulence Model (GOTM), which is a one-dimensional water column model for studying hydrodynamic and biogeochemical processes in marine and limnic waters. GOTM is published under the GNU Public Licence and can be freely used.
The heart of GOTM is a library of traditional and state-of-the-art turbulence closure models for the parameterisation of vertical turbulent fluxes of momentum, heat and dissolved and particulate matter (Umlauf and Burchard, 2005). This turbulence module has been linked to, or recoded for, a number of ocean models such as ROMS, FVCOM, SELFE, FESOM, GETM and NEMO in order to parameterize turbulent exchange.
Typically, GOTM is used as a stand-alone model for studying dynamics of boundary layers in natural waters, where lateral gradients can either be neglected or prescribed. Frequent hydrodynamic applications are investigations of air-sea fluxes, surface mixed-layer dynamics, stratification processes in shelf seas, dynamics of bottom boundary layers with or without sediment transport, estuarine and coastal dynamics, and many more. To link biogeochemical or sediment modules to GOTM, the Framework for Aquatic Biogeochemical Models (FABM) (Bruggeman and Bolding, 2014) is used, which is also available for several 3D models.
The GOTM developers encourage all users to subscribe to the GOTM Users email list to interact with all other users, to report about planned applications, to announce new results, and to discuss possible extensions. Users wanting to participate in development can apply for access to the developers mailing list here.
Types: Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: United Kingdom
Sea Region: no searegion defined
Themes: DS03 Physical oceanography
Keywords: Hydrodynamic modelling, biogeochemistry, data analysis
Last updated: 20/09/2021
The application contains a description of Geophysics.
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Types: Software (ocean related)
Languages: English
Countries: Russia
Host Countries: Russia
Sea Region: World
Themes: DS04 Marine geology
Keywords: geophysics
Last updated: 12/12/2021
Geo Point Plotter tool - Iranian National Center for Ocean Data (ODIS id: 1090)
A python script to generate a geotiff image from bathymetry data. This geotiff can be uploaded to piloting software tools to give an idea of the depth of water.
A python script to generate a geotiff image from bathymetry data. This geotiff can be uploaded to piloting software tools to give an idea of the depth of water.
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Types: Software (ocean related)
Languages: English
Countries: United Kingdom
Host Countries: United Kingdom
Sea Region: World
Themes: DS06 Cross-discipline
Keywords: gdal, geo-referenced data, geotiff
Last updated: 01/05/2021
ggOceanMapsData package - Institute of Marine Research Norway (ODIS id: 1877)
ggOceanMapsData package - Institute of Marine Research Norway
This is a spatial data repository package for the ggOceanMaps R package. The package provides low-resolution shapefiles required by ggOceanMaps. These shapefiles are placed in a separate package due to CRAN Repository Policy. Please see the ggOceanMaps documentation for further information.
ggOceanMapsData package - Institute of Marine Research Norway (ODIS id 1877)
ggOceanMapsData package - Institute of Marine Research Norway
Original (non-English) name
Acronym
ggOceanMapsData - IMR
Citation
Abstract
This is a spatial data repository package for the ggOceanMaps R package. The package provides low-resolution shapefiles required by ggOceanMaps. These shapefiles are placed in a separate package due to CRAN Repository Policy. Please see the ggOceanMaps documentation for further information.
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Types: Software (ocean related)
Languages: English
Countries: Norway
Host Countries: Norway
Sea Region: World
Themes: DS04 Marine geology
Keywords: bathymetry, r-package
Last updated: 22/04/2021
ggOceanMaps package - Institute of Marine Research Norway (ODIS id: 1876)
ggOceanMaps package - Institute of Marine Research Norway
The ggOceanMaps package for R allows plotting data on bathymetric maps using ggplot2. The package is designed for ocean sciences and greatly simplifies bathymetric map plotting anywhere around the globe. ggOceanMaps uses openly available geographic data. Citing the particular data sources is advised by the CC-BY licenses whenever maps from the package are published (see the Citations and data sources section).
The ggOceanMaps package has been developed by the Institute of Marine Research. Note that the package comes with absolutely no warranty and that maps generated by the package are meant for plotting scientific data only. The maps are coarse generalizations of third party data and therefore inaccurate. Any bug reports and code fixes are warmly welcomed. See Contributions for further details.
ggOceanMaps package - Institute of Marine Research Norway (ODIS id 1876)
ggOceanMaps package - Institute of Marine Research Norway
Original (non-English) name
Acronym
ggOceanMaps - IMR
Citation
Abstract
The ggOceanMaps package for R allows plotting data on bathymetric maps using ggplot2. The package is designed for ocean sciences and greatly simplifies bathymetric map plotting anywhere around the globe. ggOceanMaps uses openly available geographic data. Citing the particular data sources is advised by the CC-BY licenses whenever maps from the package are published (see the Citations and data sources section).
The ggOceanMaps package has been developed by the Institute of Marine Research. Note that the package comes with absolutely no warranty and that maps generated by the package are meant for plotting scientific data only. The maps are coarse generalizations of third party data and therefore inaccurate. Any bug reports and code fixes are warmly welcomed. See Contributions for further details.
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Types: Software (ocean related)
Languages: English
Countries: Norway
Host Countries: Norway
Sea Region: World
Themes: DS04 Marine geology
Keywords: bathymetry, data analysis, mapping, r-package
Last updated: 22/04/2021
glatos is an R package with functions useful to members of the Great Lakes Acoustic Telemetry Observation System (http://glatos.glos.us). Functions may be generally useful for processing, analyzing, simulating, and visualizing acoustic telemetry data, but are not strictly limited to acoustic telemetry applications.
glatos is an R package with functions useful to members of the Great Lakes Acoustic Telemetry Observation System (http://glatos.glos.us). Functions may be generally useful for processing, analyzing, simulating, and visualizing acoustic telemetry data, but are not strictly limited to acoustic telemetry applications.
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: North America Mainland
Themes: DS10 Environment, DS11 Fisheries and aquaculture
Keywords: Fish, acoustic data, data analysis, data processing, data visualization, telemetry
Last updated: 25/04/2022
Global Oceanographic Bathymetry Explorer Software (ODIS id: 1846)
GLOBE (GLobal Oceanographic Bathymetry Explorer) is an innovative application for processing and displaying oceanographic data. GLOBE offers processing and display solutions of multi-sensor data within a single 3D environment represented as a globe.
Currently the software is mainly used for processing, analysing and displaying acoustic data, as well as moving tectonic plates.
Developed in Java, GLOBE is a multiplatform application (Windows, Linux, Mac for PLACA) whose architecture allows users to develop and add with ease new modules for processing and visualizing data.
More detailled description and installation procedure can be found on Ifremer's fleet site https://www.flotteoceanographique.fr
Globe source code is available on Ifremer's gitlab repository https://gitlab.ifremer.fr/fleet/globe
Global Oceanographic Bathymetry Explorer Software (ODIS id 1846)
GLOBE (GLobal Oceanographic Bathymetry Explorer) is an innovative application for processing and displaying oceanographic data. GLOBE offers processing and display solutions of multi-sensor data within a single 3D environment represented as a globe.
Currently the software is mainly used for processing, analysing and displaying acoustic data, as well as moving tectonic plates.
Developed in Java, GLOBE is a multiplatform application (Windows, Linux, Mac for PLACA) whose architecture allows users to develop and add with ease new modules for processing and visualizing data.
More detailled description and installation procedure can be found on Ifremer's fleet site https://www.flotteoceanographique.fr
Globe source code is available on Ifremer's gitlab repository https://gitlab.ifremer.fr/fleet/globe
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Types: Software (ocean related)
Languages: English
Countries: France
Host Countries: France
Sea Region: World
Themes: DS04 Marine geology
Keywords: Java, data processing, data visualization, multi-sensor data, tectonic plates
Last updated: 01/09/2021
Great Lakes CoastWatch Java GIS - NOAA CoastWatch Great Lakes Node (ODIS id: 2879)
Great Lakes CoastWatch Java GIS - NOAA CoastWatch Great Lakes Node
Java applet allows the examination of oceanographic satellite imagery with ancillary data sets (overlays). The applet will start two new windows (Panner window and Image window) for viewing the near real-time images and a Control Panel window for toggling on and off the marine observation data and shapefile overlays.
Great Lakes CoastWatch Java GIS - NOAA CoastWatch Great Lakes Node (ODIS id 2879)
Great Lakes CoastWatch Java GIS - NOAA CoastWatch Great Lakes Node
Original (non-English) name
Acronym
Citation
Abstract
Java applet allows the examination of oceanographic satellite imagery with ancillary data sets (overlays). The applet will start two new windows (Panner window and Image window) for viewing the near real-time images and a Control Panel window for toggling on and off the marine observation data and shapefile overlays.
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: no searegion defined
Themes: DS03 Physical oceanography
Keywords: data visualization, near real time data, oceanographic data, satellite imagery
Last updated: 14/02/2022
Gibbs-SeaWater (GSW) Oceanographic Toolbox help pages in html, and associated pdf files.
Gibbs-SeaWater (GSW) Oceanographic Toolbox in Matlab - Help pages and pdf files only !!!!
This is a work in progress repository. It is intended to be a method of assisting those who are translating the code into their prefered language.
Do not download this code and treat it as an distributed release of the GSW code - it is not under any circumstance.
The ONLY location to download software is from the TEOS-10 website http://www.TEOS-10.org/.
Gibbs-SeaWater (GSW) Oceanographic Toolbox help pages in html, and associated pdf files.
Gibbs-SeaWater (GSW) Oceanographic Toolbox in Matlab - Help pages and pdf files only !!!!
This is a work in progress repository. It is intended to be a method of assisting those who are translating the code into their prefered language.
Do not download this code and treat it as an distributed release of the GSW code - it is not under any circumstance.
The ONLY location to download software is from the TEOS-10 website http://www.TEOS-10.org/.
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Types: Education and training materials (related to oceans), Manuals, guidelines, standards and best practices, Software (ocean related)
Languages: English
Countries: Australia
Host Countries: Australia
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: Gibbs-SeaWater, oceanography, sea water
Last updated: 02/05/2021
This is a subset of functions contained in the Gibbs SeaWater (GSW)
Oceanographic Toolbox of TEOS-10.
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Types: Software (ocean related)
Languages: English
Countries: Australia
Host Countries: Australia
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: Gibbs-SeaWater, fortran, sea water
Last updated: 01/05/2021
Gibbs-SeaWater (GSW) Oceanographic Toolbox in Matlab - Code only !!!
This is a work in progress repository, thie files contained in this repository are only the code file (.m files) contained in GSW(Matlab). It is intended to be a method of assisting those who are translating the code into their prefered language.
Do not download this code and treat it as an distributed release of the GSW code - it is not under any circumstance.
The ONLY location to download software is from the TEOS-10 website http://www.TEOS-10.org/
Gibbs-SeaWater (GSW) Oceanographic Toolbox in Matlab - Code only !!!
This is a work in progress repository, thie files contained in this repository are only the code file (.m files) contained in GSW(Matlab). It is intended to be a method of assisting those who are translating the code into their prefered language.
Do not download this code and treat it as an distributed release of the GSW code - it is not under any circumstance.
The ONLY location to download software is from the TEOS-10 website http://www.TEOS-10.org/
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Types: Software (ocean related)
Languages:
Countries: Australia
Host Countries: Australia
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: Gibbs-SeaWater, matlab, oceanography, sea water
Last updated: 02/05/2021
GSW python package (ODIS id: 1806)
https://pypi.org/project/gsw/
This Python implementation of the Thermodynamic Equation of Seawater 2010 (TEOS-10) is based primari ...
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GSW python package
This Python implementation of the Thermodynamic Equation of Seawater 2010 (TEOS-10) is based primarily on numpy ufunc wrappers of the GSW-C implementation. We expect it to replace the original python-gsw pure-python implementation after a brief overlap period. The primary reasons for this change are that by building on the C implementation we reduce code duplication and we gain an immediate update to the 75-term equation. Additional benefits include a major increase in speed, a reduction in memory usage, and the inclusion of more functions. The penalty is that a C (or MSVC C++ for Windows) compiler is required to build the package from source.
This Python implementation of the Thermodynamic Equation of Seawater 2010 (TEOS-10) is based primarily on numpy ufunc wrappers of the GSW-C implementation. We expect it to replace the original python-gsw pure-python implementation after a brief overlap period. The primary reasons for this change are that by building on the C implementation we reduce code duplication and we gain an immediate update to the 75-term equation. Additional benefits include a major increase in speed, a reduction in memory usage, and the inclusion of more functions. The penalty is that a C (or MSVC C++ for Windows) compiler is required to build the package from source.
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Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS02 Chemical oceanography, DS03 Physical oceanography
Keywords: Gibbs-SeaWater, python, sea water
Last updated: 16/05/2021
HDFView is a visual tool for browsing and editing HDF4 and HDF5 files. Using HDFView, you can view a file hierarchy in a tree structure create new files, add or delete groups and datasets view and modify the content of a dataset add, delete and modify attributes.
HDFView is a visual tool for browsing and editing HDF4 and HDF5 files. Using HDFView, you can view a file hierarchy in a tree structure create new files, add or delete groups and datasets view and modify the content of a dataset add, delete and modify attributes.
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Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS06 Cross-discipline
Keywords: data visualization
Last updated: 26/04/2021
Assessment units are defined by HELCOM comtracting parties. An assessment units can have multiple indicators. Each indicator can have different temporal (months) and spatial (depths) coverage and reference values within the different assessment units.
HELCOM Eutrophication assessment tool (ODIS id 2297)
Assessment units are defined by HELCOM comtracting parties. An assessment units can have multiple indicators. Each indicator can have different temporal (months) and spatial (depths) coverage and reference values within the different assessment units.
HFRADAR Maps API - Coastal Observing Research and Development Center
HFRADAR Surface Currents API: do you want HFRADAR vectors on your map app.? We thought you might, so we built an API that allows you to access and query our tile base on your own.
With the inclusion of just a script tag and the Google Maps API, you can add your own vector overlays.
HFRADAR Maps API - Coastal Observing Research and Development Center (ODIS id 2317)
HFRADAR Maps API - Coastal Observing Research and Development Center
Original (non-English) name
Acronym
HFRADAR Maps API - CORDC
Citation
Abstract
HFRADAR Surface Currents API: do you want HFRADAR vectors on your map app.? We thought you might, so we built an API that allows you to access and query our tile base on your own.
With the inclusion of just a script tag and the Google Maps API, you can add your own vector overlays.
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: API, HF radar, data services
Last updated: 25/09/2021
High Frequency Radar API - Southeast Coastal Ocean Observing Regional Association (ODIS id: 2642)
Types: Software (ocean related)
Languages: English
Countries: REGIONAL
Host Countries: United States
Sea Region: no searegion defined
Themes: DS03 Physical oceanography
Keywords: API, HF radar
Last updated: 18/10/2021
HydroBase3 is a tool for climatological analysis of oceanographic properties. The package is comprised of software and database products that together provide a flexible means of constructing and analyzing datasets customized to investigators' research needs. A graphical user interface has been built to enable running HydroBase3 within a Matlab environment.
HydroBase3 is a tool for climatological analysis of oceanographic properties. The package is comprised of software and database products that together provide a flexible means of constructing and analyzing datasets customized to investigators' research needs. A graphical user interface has been built to enable running HydroBase3 within a Matlab environment.
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: no searegion defined
Themes: no theme defined
Keywords:
Last updated: 02/10/2021
HydrOffice package (ODIS id: 1882)
https://www.hydroffice.org/
HydrOffice represents an open-source collaborative effort led by the Center for Coastal and Ocean Ma ...
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HydrOffice package
HydrOffice represents an open-source collaborative effort led by the Center for Coastal and Ocean Mapping to develop a research software environment with applications to facilitate all phases of the ping-to-chart process: facilitate data acquisition, automate and enhance data processing, and improve hydrographic products.
The environment, by minimizing the efforts to kick-start and by easing the configuration management, facilitates the creation of new tools for researcher, students and in the field; and, potentially, it eases the industrialization of some of these tools. The overall goal is thus to speed up both algorithms testing and Research-to-Operation (R2O).
HydrOffice’s wide scope is structured in three research themes:
Facilitate Data Acquisition.
Automate and Enhance Data Processing.
Improve Hydrographic Products.
These themes drive the creation of a collection of hydro-packages, each of them dealing with a specific issue of the field.
HydrOffice has open licenses and encourages free contribution, and can facilitate development with an existing infrastructure and interface. Individual tools within HydrOffice are built in contained, modularized structures, such that they can be easily updated and maintained.
One of the main HydrOffice requirement is easiness in its extension. This goal is achieved by natively supporting a plugin architecture:
Base packages provide with common boiler-plate code.
Several hydro-packages where each one ship a few task-specific algorithms and can access common code from the base packages.
Furthermore, a skeleton package is provided with a base GUI to speed up and to ease the focus on the targeted weakness.
Finally, the individual tools in HydrOffice are usually also provided as “frozen”, standalone, click-and-play solutions that require no installation on behalf of the user.
All of the HydrOffice applications are made available within Pydro (a suite of software tools used to support hydrography developed and maintained by NOAA Office of Coast Survey's Hydrographic Systems and Technology Branch), to support NOAA operations (aiding Office of Coast Survey fleet). Pydro is also made available for public use.
HydrOffice represents an open-source collaborative effort led by the Center for Coastal and Ocean Mapping to develop a research software environment with applications to facilitate all phases of the ping-to-chart process: facilitate data acquisition, automate and enhance data processing, and improve hydrographic products.
The environment, by minimizing the efforts to kick-start and by easing the configuration management, facilitates the creation of new tools for researcher, students and in the field; and, potentially, it eases the industrialization of some of these tools. The overall goal is thus to speed up both algorithms testing and Research-to-Operation (R2O).
HydrOffice’s wide scope is structured in three research themes:
Facilitate Data Acquisition.
Automate and Enhance Data Processing.
Improve Hydrographic Products.
These themes drive the creation of a collection of hydro-packages, each of them dealing with a specific issue of the field.
HydrOffice has open licenses and encourages free contribution, and can facilitate development with an existing infrastructure and interface. Individual tools within HydrOffice are built in contained, modularized structures, such that they can be easily updated and maintained.
One of the main HydrOffice requirement is easiness in its extension. This goal is achieved by natively supporting a plugin architecture:
Base packages provide with common boiler-plate code.
Several hydro-packages where each one ship a few task-specific algorithms and can access common code from the base packages.
Furthermore, a skeleton package is provided with a base GUI to speed up and to ease the focus on the targeted weakness.
Finally, the individual tools in HydrOffice are usually also provided as “frozen”, standalone, click-and-play solutions that require no installation on behalf of the user.
All of the HydrOffice applications are made available within Pydro (a suite of software tools used to support hydrography developed and maintained by NOAA Office of Coast Survey's Hydrographic Systems and Technology Branch), to support NOAA operations (aiding Office of Coast Survey fleet). Pydro is also made available for public use.
Technical contact email
please check the record details page
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Types
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Types: Software (ocean related)
Languages: English
Countries: GLOBAL
Host Countries: United States
Sea Region: no searegion defined
Themes: DS04 Marine geology
Keywords: bathymetry, data analysis, data processing, python, quality control
Last updated: 25/04/2021
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: NetCDF, oceanography, python
Last updated: 01/05/2021
Surface gravity waves play a major role in the exchange of momentum, heat, energy, and gases between the ocean and the atmosphere. The interaction between currents and waves can lead to variations in the wave direction, frequency, and amplitude. In the present work, we use an ensemble of synthetic currents to force the wave model WAVEWATCH III and assess the relative impact of current divergence and vorticity in modifying several properties of the waves, including direction, period, directional spreading, and significant wave height (Hs). We find that the spatial variability of Hs is highly sensitive to the nature of the underlying current and that refraction-caused vorticity in the rotational component of the flow is the main mechanism leading to gradients of Hs. The results obtained using synthetic currents were used to interpret the response of surface waves to realistic currents by running an additional set of simulations using the llc4320 MITgcm output in the California Current region. Our findings suggest that wave parameters could be used to detect and characterize strong gradients in the velocity field, which is particularly relevant for the Surface Water and Ocean Topography (SWOT) satellite as well as several proposed satellite missions.
Villas Bôas, Ana B. (2020, September 23). Source code for: 'Wave-Current Interactions at Meso and Submesoscales: Insights from Idealized Numerical Simulations' (Version v0.1). Zenodo. http://doi.org/10.5281/zenodo.4045184
Abstract
Surface gravity waves play a major role in the exchange of momentum, heat, energy, and gases between the ocean and the atmosphere. The interaction between currents and waves can lead to variations in the wave direction, frequency, and amplitude. In the present work, we use an ensemble of synthetic currents to force the wave model WAVEWATCH III and assess the relative impact of current divergence and vorticity in modifying several properties of the waves, including direction, period, directional spreading, and significant wave height (Hs). We find that the spatial variability of Hs is highly sensitive to the nature of the underlying current and that refraction-caused vorticity in the rotational component of the flow is the main mechanism leading to gradients of Hs. The results obtained using synthetic currents were used to interpret the response of surface waves to realistic currents by running an additional set of simulations using the llc4320 MITgcm output in the California Current region. Our findings suggest that wave parameters could be used to detect and characterize strong gradients in the velocity field, which is particularly relevant for the Surface Water and Ocean Topography (SWOT) satellite as well as several proposed satellite missions.
Technical contact email
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Types: Software (ocean related)
Languages: Udmurt
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS03 Physical oceanography
Keywords: python, surface waves, vorticity
Last updated: 30/04/2021
Inlinino is an open-source software data logger for oceanographers. It primarily log measurements from optical instruments deployed on research vessels during month long campaigns. Secondarily, it provides real-time visualization, which helps users troubleshoot instruments in the field and ensure collection of quality data. Inlinino is designed to interface with either serial (RS-232) or analog instruments. The data received is logged in a timestamped raw format (as communicated by the instrument) or in a comma separated file (csv) for easy importation in data analysis software. Typically, a new log file is created every hour for simplicity of post-processing and easy backups. Instruments supported are: SeaBird TSG, Satlantic PAR, WET Labs ECO sensors (e.g. ECO-BB3, ECO-FLBBCD, ECO-BBFL2, ECO-3X1M, ECO-BB9, ECO-BBRT), WET Labs ACS, Sequoia LISST, and analog sensors through a data acquisition system (DataQ DI-1100 ). Other instruments can be added via the user interface if they output simple ascii data frame, otherwise the code is intended to be modular to support new instruments.
Haentjens, N. and Boss, E., 2020. Inlinino: A Modular Software Data Logger for Oceanography. DIY Oceanography. DOI: 10.5670/oceanog.2020.112
Abstract
Inlinino is an open-source software data logger for oceanographers. It primarily log measurements from optical instruments deployed on research vessels during month long campaigns. Secondarily, it provides real-time visualization, which helps users troubleshoot instruments in the field and ensure collection of quality data. Inlinino is designed to interface with either serial (RS-232) or analog instruments. The data received is logged in a timestamped raw format (as communicated by the instrument) or in a comma separated file (csv) for easy importation in data analysis software. Typically, a new log file is created every hour for simplicity of post-processing and easy backups. Instruments supported are: SeaBird TSG, Satlantic PAR, WET Labs ECO sensors (e.g. ECO-BB3, ECO-FLBBCD, ECO-BBFL2, ECO-3X1M, ECO-BB9, ECO-BBRT), WET Labs ACS, Sequoia LISST, and analog sensors through a data acquisition system (DataQ DI-1100 ). Other instruments can be added via the user interface if they output simple ascii data frame, otherwise the code is intended to be modular to support new instruments.
Technical contact email
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Countries owning the source
Sea Region
Spatial Coverage
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Keywords
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DOI's
Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS02 Chemical oceanography, DS03 Physical oceanography, DS05 Atmosphere
Keywords: c++, data logger, oceanography, python
Last updated: 01/05/2021
Unidata’s Integrated Data Viewer (IDV) is a freely available 3D geoscience visualization and analysis tool that gives users the ability to view and analyze a rich set of geoscience data in an integrated fashion. The IDV brings together the ability to display and analyze satellite imagery, gridded data (such as numerical weather prediction model output), surface observations (METARs), upper air soundings, NWS NEXRAD Level II and Level III RADAR data, and GIS data, all within a unified interface. The IDV integrates tightly with common scientific data servers (including Unidata’s TDS) to provide easy access to many real-time and archive datasets. It also provides collaborative features that enable users to easily share their own data holdings and analysis products with others.
Unidata’s Integrated Data Viewer (IDV) is a freely available 3D geoscience visualization and analysis tool that gives users the ability to view and analyze a rich set of geoscience data in an integrated fashion. The IDV brings together the ability to display and analyze satellite imagery, gridded data (such as numerical weather prediction model output), surface observations (METARs), upper air soundings, NWS NEXRAD Level II and Level III RADAR data, and GIS data, all within a unified interface. The IDV integrates tightly with common scientific data servers (including Unidata’s TDS) to provide easy access to many real-time and archive datasets. It also provides collaborative features that enable users to easily share their own data holdings and analysis products with others.
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please check the record details page
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Countries owning the source
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Spatial Coverage
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Keywords
Themes
DOI's
Types
Interaction techs
Contributing data to
Obtaining data from
Types: Software (ocean related)
Languages: English
Countries: United States
Host Countries: United States
Sea Region: World
Themes: DS06 Cross-discipline
Keywords: data analysis, data visualization
Last updated: 26/04/2021
Introduction to Physical Oceanography by R. Stewart.
Based on the work of Robert Stewart
Robert Stewart's "Introduction to Physical Oceanography" was the first oceanography textbook for many students. It was always the free high-quality source of basic oceanographic knowledge. Robert Stewart retired in 2009 and did not update the book after that. With his permission, we now publish the latest version of the book's LaTeX source code on GitHub. Dr. Stewart gives his permission to update the book by fixing errors and adding new information. He has only two conditions:
Don’t let the book grow into an encyclopedia. It is an INTRODUCTION, leaving details to more expert and focused publications (which could also be on the web server). Keep the book focused on the most important issues students need to know about. Today, satellite oceanography needs to be emphasized as most of our knowledge comes from satellites and drifters.
My only request is that the book not be offered for sale. It should be open source and available to everyone at no cost.
We are going to update the book through the usual GitHub procedure with PRs and code review. Any help and contributions from the oceanographic community will be greatly appreciated.
Introduction to Physical Oceanography by R. Stewart.
Based on the work of Robert Stewart
Robert Stewart's "Introduction to Physical Oceanography" was the first oceanography textbook for many students. It was always the free high-quality source of basic oceanographic knowledge. Robert Stewart retired in 2009 and did not update the book after that. With his permission, we now publish the latest version of the book's LaTeX source code on GitHub. Dr. Stewart gives his permission to update the book by fixing errors and adding new information. He has only two conditions:
Don’t let the book grow into an encyclopedia. It is an INTRODUCTION, leaving details to more expert and focused publications (which could also be on the web server). Keep the book focused on the most important issues students need to know about. Today, satellite oceanography needs to be emphasized as most of our knowledge comes from satellites and drifters.
My only request is that the book not be offered for sale. It should be open source and available to everyone at no cost.
We are going to update the book through the usual GitHub procedure with PRs and code review. Any help and contributions from the oceanographic community will be greatly appreciated.