https://github.com/inSileco/awesome-ecodata

Currated list of ecological data and tool to access them
https://github.com/inSileco/awesome-ecodata

List: awesome-ecodata

Last synced: 16 days ago
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Currated list of ecological data and tool to access them

• Host: GitHub
• URL: https://github.com/inSileco/awesome-ecodata
• Owner: inSileco
• License: cc0-1.0
• Created: 2020-05-20T14:36:41.000Z (over 4 years ago)
• Default Branch: master
• Last Pushed: 2020-05-20T18:45:17.000Z (over 4 years ago)
• Last Synced: 2024-05-23T06:00:52.523Z (7 months ago)
• Homepage:
• Size: 5.86 KB
• Stars: 2
• Watchers: 4
• Forks: 0
• Open Issues: 8
• Metadata Files:
  • Readme: README.md
  • Contributing: CONTRIBUTING.md
  • License: LICENSE

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• ultimate-awesome - awesome-ecodata - Currated list of ecological data and tool to access them. (Other Lists / PowerShell Lists)

README

        
# Ecodata

[![Awesome](https://awesome.re/badge-flat2.svg)](https://awesome.re)

Curated list of online data bases relevant for ecological analyses and programmatic interface to access them. Inspired by [awesome-research](https://github.com/emptymalei/awesome-research#readme).

## Table Of Content

* [Distribution](#distribution)

* [Ecological interactions](#ecological-interactions)

* [Taxonomy](#taxonomy)

* [Genetic](#genetic)

* [Legislation](#legislation)

* [Articles](#articles)

* [Journals](#journals)

## Species Distribution

* [GBIF](https://www.gbif.org/) :world_map: :plant: :plant:

  * [Python Client](https://pypi.org/project/pygbif/)

  * [Julia Client](https://github.com/EcoJulia/GBIF.jl)

  * [R Client](https://docs.ropensci.org/rgbif/) (+ [tutotial](https://ropensci.org/tutorials/rgbif_tutorial/))

  * [Ruby client](https://github.com/sckott/gbifrb)

  * [Web API: RESTful](https://www.gbif.org/developer/summary)

* [BIEN](https://bien.nceas.ucsb.edu/bien/): Geo-referenced plant observations from herbarium, plot, and trait records.

  * [R Client](https://cran.r-project.org/web/packages/BIEN/index.html)

* [ebird](https://ebird.org/home)

  * [R Client](https://cornelllabofornithology.github.io/auk/)

  * [Python Client](https://pypi.org/project/ebird-api/)

## Ecological interactions

* [Globi](https://www.globalbioticinteractions.org/)

  * [Rclient](https://docs.ropensci.org/rglobi/)

* [Mangal](https://mangal.io/#/)

  * [Web API: RESTful](https://mangal.io/#/)

  * [Julia Client](https://mangal.io/doc/jl/)

  * [R client](https://docs.ropensci.org/rmangal/)

## Taxonomy

- [ITIS](https://www.itis.gov/): Authoritative taxonomic information on plants, animals, fungi, and microbes worldwide. 

  - [REST API](https://www.itis.gov/ws_description.html)

  - [R client](https://docs.ropensci.org/ritis/)

## Genetic

* [BOLD](https://www.boldsystems.org/)

  - [R client](https://docs.ropensci.org/bold/)

* [GenBank](https://www.ncbi.nlm.nih.gov/)

  - [R client](https://www.bioconductor.org/packages/release/bioc/html/genbankr.html) (also ape `read.GenBank`)

## Species information

* [Fishbase](https://www.fishbase.se/search.php)

  * [R client](https://docs.ropensci.org/rfishbase/)

## Legislation

* [CITES](https://trade.cites.org/)

    * [citesdb](https://docs.ropensci.org/citesdb/)

* [Species+/CITES](https://api.speciesplus.net/)

    * [R Client](https://cran.r-project.org/web/packages/rcites/index.html)

* [IUCN red list](https://www.iucnredlist.org/)

    * [web API](http://apiv3.iucnredlist.org/api/v3/docs#species-narrative-name)

    * [R Client](https://github.com/ropensci/rredlist)

## Articles

* [iEcology: Harnessing Large Online Resources to Generate Ecological Insights](https://doi.org/10.1016/j.tree.2020.03.003)

* [Ecological sharing](http://dx.doi.org/10.1016/j.ecoinf.2015.06.010): details

* [From ecological records to big data: the invention

of global biodiversity](10.1007/s40656-016-0113-2)

## Journals

* [Biodiversity Data Journal](https://bdj.pensoft.net/)