{"id":13724526,"url":"https://github.com/ropensci/spocc","last_synced_at":"2025-07-13T09:34:29.531Z","repository":{"id":10453100,"uuid":"12623134","full_name":"ropensci/spocc","owner":"ropensci","description":"Species occurrence data toolkit for R","archived":false,"fork":false,"pushed_at":"2025-02-04T14:25:58.000Z","size":14540,"stargazers_count":119,"open_issues_count":17,"forks_count":28,"subscribers_count":20,"default_branch":"master","last_synced_at":"2025-05-02T15:41:50.063Z","etag":null,"topics":["antweb","api","bison","data","ebird","ecoengine","gbif","idigbio","inaturalist","obis","occurrence","r","r-package","rstats","species","species-occurrence","spocc","vertnet"],"latest_commit_sha":null,"homepage":"https://docs.ropensci.org/spocc","language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"other","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/ropensci.png","metadata":{"files":{"readme":"README.md","changelog":"NEWS.md","contributing":".github/CONTRIBUTING.md","funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":"codemeta.json","zenodo":null}},"created_at":"2013-09-05T16:46:13.000Z","updated_at":"2025-04-28T13:55:26.000Z","dependencies_parsed_at":"2024-03-17T04:43:12.892Z","dependency_job_id":"aaa936bf-f187-4eb5-a4e9-8c91a2f8e8c5","html_url":"https://github.com/ropensci/spocc","commit_stats":{"total_commits":843,"total_committers":8,"mean_commits":105.375,"dds":"0.12811387900355875","last_synced_commit":"cb80a64abc0238d3c2de7b89dcf8ddf0b38e7c70"},"previous_names":[],"tags_count":26,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ropensci%2Fspocc","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ropensci%2Fspocc/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ropensci%2Fspocc/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ropensci%2Fspocc/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/ropensci","download_url":"https://codeload.github.com/ropensci/spocc/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":252215160,"owners_count":21712919,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["antweb","api","bison","data","ebird","ecoengine","gbif","idigbio","inaturalist","obis","occurrence","r","r-package","rstats","species","species-occurrence","spocc","vertnet"],"created_at":"2024-08-03T01:01:58.736Z","updated_at":"2025-05-08T00:39:26.032Z","avatar_url":"https://github.com/ropensci.png","language":"R","funding_links":[],"categories":["Biosphere"],"sub_categories":["Biodiversity Data Access and Management"],"readme":"\n\n# spocc (SPecies OCCurrence) \u003cimg src=\"man/figures/logo.png\" align=\"right\" alt=\"\" width=\"120\"\u003e\n\n[![R-CMD-check](https://github.com/ropensci/spocc/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/ropensci/spocc/actions/workflows/R-CMD-check.yaml)\n[![test-sp-sf](http://github.com/ropensci/spocc/workflows/test-sp-sf/badge.svg)](http://github.com/ropensci/spocc/actions?query=workflow%3Atest-sp-sf)\n[![codecov.io](http://codecov.io/github/ropensci/spocc/coverage.svg?branch=master)](http://codecov.io/github/ropensci/spocc?branch=master)\n[![cran checks](http://badges.cranchecks.info/worst/spocc.svg)](http://cran.r-project.org/web/checks/check_results_spocc.html)\n[![rstudio mirror downloads](https://cranlogs.r-pkg.org/badges/spocc)](https://github.com/r-hub/cranlogs.app)\n[![cran version](http://r-pkg.org/badges/version/spocc)](http://cran.r-project.org/package=spocc)\n\nDocs: \u003chttp://docs.ropensci.org/spocc/\u003e\n\nAt rOpenSci, we have been writing R packages to interact with many sources of species occurrence data, including [GBIF][gbif], [Vertnet][vertnet], [iNaturalist][inat], and [eBird][ebird]. Other databases are out there as well, which we can pull in. `spocc` is an R package to query and collect species occurrence data from many sources. The goal is to to create a seamless search experience across data sources, as well as creating unified outputs across data sources.\n\n`spocc` currently interfaces with seven major biodiversity repositories\n\n1. [Global Biodiversity Information Facility (GBIF)][gbif] (via `rgbif`)\nGBIF is a government funded open data repository with several partner organizations with the express goal of providing access to data on Earth's biodiversity. The data are made available by a network of member nodes, coordinating information from various participant organizations and government agencies.\n\n2. [iNaturalist][inat]\niNaturalist provides access to crowd sourced citizen science data on species observations.\n\n3. [VertNet][vertnet] (via `rvertnet`)\nSimilar to `rgbif` (see below), VertNet provides access to more than 80 million vertebrate records spanning a large number of institutions and museums primarly covering four major disciplines (mammology, herpetology, ornithology, and icthyology).\n\n4. [eBird][ebird] (via `rebird`)\nebird is a database developed and maintained by the Cornell Lab of Ornithology and the National Audubon Society. It provides real-time access to checklist data, data on bird abundance and distribution, and communtiy reports from birders.\n\n5. [iDigBio][idigbio] (via `ridigbio`)\niDigBio facilitates the digitization of biological and paleobiological specimens and their associated data, and houses specimen data, as well as providing their specimen data via RESTful web services.\n\n6. [OBIS][obis]\nOBIS (Ocean Biogeographic Information System) allows users to search marine species datasets from all of the world's oceans.\n\n7. [Atlas of Living Australia][ala]\nALA (Atlas of Living Australia) contains information on all the known species in Australia aggregated from a wide range of data providers: museums, herbaria, community groups, government departments, individuals and universities; it contains more than 50 million occurrence records.\n\nThe inspiration for this comes from users requesting a more seamless experience across data sources, and from our work on a similar package for taxonomy data ([taxize][taxize]).\n\n__BEWARE:__ In cases where you request data from multiple providers, especially when including GBIF, there could be duplicate records since many providers' data eventually ends up with GBIF. See `?spocc_duplicates`, after installation, for more.\n\n## Learn more\n\nspocc documentation: \u003cdocs.ropensci.org/spocc/\u003e\n\n## Contributing\n\nSee [CONTRIBUTING.md](http://github.com/ropensci/spocc/blob/master/.github/CONTRIBUTING.md)\n\n## Installation\n\nStable version from CRAN\n\n\n```r\ninstall.packages(\"spocc\", dependencies = TRUE)\n```\n\nOr the development version from GitHub\n\n\n```r\ninstall.packages(\"remotes\")\nremotes::install_github(\"ropensci/spocc\")\n```\n\n\n```r\nlibrary(\"spocc\")\n```\n\n## Make maps\n\nAll mapping functionality is now in a separate package [mapr](http://github.com/ropensci/mapr) (formerly known as `spoccutils`), to make `spocc` easier to maintain. `mapr` [on CRAN](http://cran.r-project.org/package=mapr).\n\n## Meta\n\n* Please [report any issues or bugs](http://github.com/ropensci/spocc/issues).\n* License: MIT\n* Get citation information for `spocc` in R doing `citation(package = 'spocc')`\n* Please note that this package is released with a [Contributor Code of Conduct](http://ropensci.org/code-of-conduct/). By contributing to this project, you agree to abide by its terms.\n* Sticker: Images come from Phylopic \u003chttp://phylopic.org/\u003e\n\n\n[gbif]: http://www.gbif.org/\n[vertnet]: http://github.com/ropensci/rvertnet\n[inat]: http://www.inaturalist.org/\n[taxize]: http://github.com/ropensci/taxize\n[idigbio]: http://www.idigbio.org/\n[obis]: http://obis.org/\n[ebird]: http://ebird.org/home\n[ala]: http://www.ala.org.au/\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fropensci%2Fspocc","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fropensci%2Fspocc","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fropensci%2Fspocc/lists"}