{ "_id": "69e461d1c5259ad4cd9770fb", "Package": "auk", "Title": "eBird Data Extraction and Processing in R", "Version": "0.9.2", "Authors@R": "c(person(given = \"Matthew\",\nfamily = \"Strimas-Mackey\",\nrole = c(\"aut\", \"cre\"),\nemail = \"mes335@cornell.edu\",\ncomment = c(ORCID = \"0000-0001-8929-7776\")),\nperson(given = \"Eliot\",\nfamily = \"Miller\",\nrole = \"aut\"),\nperson(given = \"Wesley\",\nfamily = \"Hochachka\",\nrole = \"aut\"),\nperson(given = \"Cornell Lab of Ornithology\",\nrole = \"cph\"))", "Description": "Extract and process bird sightings records from eBird\n(), an online tool for recording bird\nobservations. Public access to the full eBird database is via\nthe eBird Basic Dataset (EBD; see\n for access), a\ndownloadable text file. This package is an interface to AWK for\nextracting data from the EBD based on taxonomic, spatial, or\ntemporal filters, to produce a manageable file size that can be\nimported into R.", "License": "GPL-3", "URL": "https://cornelllabofornithology.github.io/auk/", "BugReports": "https://github.com/CornellLabofOrnithology/auk/issues", "VignetteBuilder": "knitr", "Encoding": "UTF-8", "LazyData": "true", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.3", "Config/pak/sysreqs": "libicu-dev libssl-dev libx11-dev", "Repository": "https://ropensci.r-universe.dev", "Date/Publication": "2026-03-20 04:10:49 UTC", "RemoteUrl": "https://github.com/CornellLabofOrnithology/auk", "RemoteRef": "main", "RemoteSha": "e2fc3cda779ccef3a25961dec7c940cefd2f3729", "NeedsCompilation": "no", "Packaged": { "Date": "2026-04-19 04:58:55 UTC", "User": "root" }, "Author": "Matthew Strimas-Mackey [aut, cre] (ORCID:\n),\nEliot Miller [aut],\nWesley Hochachka [aut],\nCornell Lab of Ornithology [cph]", "Maintainer": "Matthew Strimas-Mackey ", "MD5sum": "3b70586257830e8a01774ec491b46b93", "_user": "ropensci", "_type": "src", "_file": "auk_0.9.2.tar.gz", "_fileid": "d5a78793f0cf00934a3d19493fc350984c38502e47572969939857a7b1565579", "_filesize": 1613181, "_sha256": "d5a78793f0cf00934a3d19493fc350984c38502e47572969939857a7b1565579", "_created": "2026-04-19T04:58:55.000Z", "_published": "2026-04-28T14:36:46.739Z", "_distro": "noble", "_jobs": [ { "job": 71992668235, "time": 143, "config": "linux-devel-x86_64", "r": "4.6.0", "check": "OK", "artifact": "6515777196" }, { "job": 71992668241, "time": 150, "config": "linux-release-x86_64", "r": "4.5.3", "check": "OK", "artifact": "6515777924" }, { "job": 71992668228, "time": 107, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "6515774025" }, { "job": 71992668229, "time": 101, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "6515773553" }, { "job": 71992530239, "time": 170, "config": "pkgdown", "r": "4.5.2", "check": "OK", "artifact": "6515762231" }, { "job": 71992530238, "time": 202, "config": "source", "r": "4.5.3", "check": "OK", "artifact": "6515764694" }, { "job": 71992668211, "time": 129, "config": "wasm-release", "r": "4.5.1", "check": "OK", "artifact": "6515775930" }, { "job": 71992668226, "time": 127, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "6515775885" }, { "job": 71992668221, "time": 110, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "6515774275" }, { "job": 71992668222, "time": 109, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "6515774179" } ], "_buildurl": "https://github.com/r-universe/ropensci/actions/runs/24621351255", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/CornellLabofOrnithology/auk", "_commit": { "id": "e2fc3cda779ccef3a25961dec7c940cefd2f3729", "author": "Matt Strimas-Mackey ", "committer": "Matt Strimas-Mackey ", "message": "remove pipe, rebuild site\n", "time": 1773979849 }, "_maintainer": { "name": "Matthew Strimas-Mackey", "email": "mes335@cornell.edu", "login": "mstrimas", "orcid": "0000-0001-8929-7776", "uuid": 7296482 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.1.0", "role": "Depends" }, { "package": "assertthat", "role": "Imports" }, { "package": "countrycode", "version": ">= 1.0.0", "role": "Imports" }, { "package": "dplyr", "version": ">= 0.7.8", "role": "Imports" }, { "package": "httr2", "role": "Imports" }, { "package": "readr", "version": ">= 2.0.0", "role": "Imports" }, { "package": "rlang", "version": ">= 0.3.0", "role": "Imports" }, { "package": "stringi", "role": "Imports" }, { "package": "stringr", "role": "Imports" }, { "package": "tidyr", "version": ">= 0.8.0", "role": "Imports" }, { "package": "covr", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "sf", "role": "Suggests" }, { "package": "testthat", "role": "Suggests" }, { "package": "unmarked", "role": "Suggests" }, { "package": "withr", "role": "Suggests" } ], "_owner": "cornelllabofornithology", "_selfowned": true, "_usedby": 1, "_updates": [ { "week": "2025-16", "n": 1 }, { "week": "2025-18", "n": 2 }, { "week": "2025-22", "n": 3 }, { "week": "2025-25", "n": 6 }, { "week": "2025-51", "n": 2 }, { "week": "2026-02", "n": 1 }, { "week": "2026-03", "n": 1 }, { "week": "2026-12", "n": 4 } ], "_tags": [], "_topics": [ "dataset", "ebird" ], "_stars": 157, "_contributors": [ { "user": "mstrimas", "count": 236, "uuid": 7296482 }, { "user": "vlucet", "count": 4, "uuid": 11233873 }, { "user": "aidan-gibson", "count": 2, "uuid": 20917687 }, { "user": "visorbearer", "count": 2, "uuid": 11413268 }, { "user": "rafnuss", "count": 2, "uuid": 7571260 }, { "user": "jimhester", "count": 1, "uuid": 205275 }, { "user": "kateferrandino", "count": 1, "uuid": 94081185 }, { "user": "maelle", "count": 1, "uuid": 8360597 }, { "user": "richardlitt", "count": 1, "uuid": 910753 } ], "_userbio": { "uuid": 1200269, "type": "organization", "name": "rOpenSci", "description": "Tools and R Packages for Open Science" }, "_downloads": { "count": 1243, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/auk" }, "_mentions": 1, "_devurl": "https://github.com/cornelllabofornithology/auk", "_pkgdown": "https://cornelllabofornithology.github.io/auk/", "_searchresults": 350, "_metadata": { "review": { "id": 136, "status": "reviewed", "version": "0.0.2.900", "organization": "rOpenSci Software Review", "url": "https://github.com/ropensci/software-review/issues/136" }, "ropensci_category": "data-access" }, "_rbuild": "4.5.3", "_assets": [ "extra/auk.html", "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/cornelllabofornithology/auk", "_realowner": "ropensci", "_cranurl": true, "_releases": [ { "version": "0.0.1", "date": "2017-07-05" }, { "version": "0.0.2", "date": "2017-07-05" }, { "version": "0.1.0", "date": "2017-10-21" }, { "version": "0.2.0", "date": "2018-03-20" }, { "version": "0.2.1", "date": "2018-03-28" }, { "version": "0.2.2", "date": "2018-07-23" }, { "version": "0.3.0", "date": "2018-10-04" }, { "version": "0.3.1", "date": "2018-12-07" }, { "version": "0.3.2", "date": "2019-02-04" }, { "version": "0.3.3", "date": "2019-06-23" }, { "version": "0.4.0", "date": "2019-09-23" }, { "version": "0.4.1", "date": "2020-04-03" }, { "version": "0.4.2", "date": "2020-10-19" }, { "version": "0.4.3", "date": "2020-11-23" }, { "version": "0.4.4", "date": "2021-07-21" }, { "version": "0.5.0", "date": "2021-09-16" }, { "version": "0.5.1", "date": "2021-10-27" }, { "version": "0.6.0", "date": "2022-10-29" }, { "version": "0.7.0", "date": "2023-11-14" }, { "version": "0.8.0", "date": "2025-01-17" }, { "version": "0.8.1", "date": "2025-05-04" }, { "version": "0.8.2", "date": "2025-06-20" }, { "version": "0.9.0", "date": "2025-12-17" }, { "version": "0.9.1", "date": "2026-01-13" } ], "_exports": [ "auk_bbox", "auk_bcr", "auk_breeding", "auk_clean", "auk_complete", "auk_country", "auk_county", "auk_date", "auk_distance", "auk_duration", "auk_ebd", "auk_ebd_version", "auk_exotic", "auk_extent", "auk_filter", "auk_get_awk_path", "auk_get_ebd_path", "auk_last_edited", "auk_observer", "auk_project", "auk_protocol", "auk_rollup", "auk_sampling", "auk_select", "auk_set_awk_path", "auk_set_ebd_path", "auk_species", "auk_split", "auk_state", "auk_time", "auk_unique", "auk_version", "auk_year", "auk_zerofill", "collapse_zerofill", "ebird_species", "filter_repeat_visits", "format_unmarked_occu", "get_ebird_taxonomy", "process_barcharts", "read_ebd", "read_sampling" ], "_datasets": [ { "name": "bcr_codes", "title": "BCR Codes", "object": "bcr_codes", "class": [ "tbl_df", "tbl", "data.frame" ], "fields": [ "bcr_code", "bcr_name" ], "rows": 66, "table": true, "tojson": true }, { "name": "ebird_states", "title": "eBird States", "object": "ebird_states", "class": [ "tbl_df", "tbl", "data.frame" ], "fields": [ "country", "country_code", "state", "state_code" ], "rows": 3145, "table": true, "tojson": true }, { "name": "ebird_taxonomy", "title": "eBird Taxonomy", "object": "ebird_taxonomy", "class": [ "data.frame" ], "fields": [ "species_code", "taxon_concept_id", "scientific_name", "common_name", "order", "family", "family_common", "category", "taxonomic_order", "report_as", "extinct" ], "rows": 17891, "table": true, "tojson": true }, { "name": "valid_protocols", "title": "Valid Protocols", "object": "valid_protocols", "class": [ "character" ], "fields": [], "table": false, "tojson": true } ], "_help": [ { "page": "auk_bbox", "title": "Filter the eBird data by spatial bounding box", "concept": [ "filter" ], "topics": [ "auk_bbox" ] }, { "page": "auk_bcr", "title": "Filter the eBird data by Bird Conservation Region", "concept": [ "filter" ], "topics": [ "auk_bcr" ] }, { "page": "auk_breeding", "title": "Filter to only include observations with breeding codes", "concept": [ "filter" ], "topics": [ "auk_breeding" ] }, { "page": "auk_clean", "title": "Clean an eBird data file (Deprecated)", "concept": [ "text" ], "topics": [ "auk_clean" ] }, { "page": "auk_complete", "title": "Filter out incomplete checklists from the eBird data", "concept": [ "filter" ], "topics": [ "auk_complete" ] }, { "page": "auk_country", "title": "Filter the eBird data by country", "concept": [ "filter" ], "topics": [ "auk_country" ] }, { "page": "auk_county", "title": "Filter the eBird data by county", "concept": [ "filter" ], "topics": [ "auk_county" ] }, { "page": "auk_date", "title": "Filter the eBird data by date", "concept": [ "filter" ], "topics": [ "auk_date" ] }, { "page": "auk_distance", "title": "Filter eBird data by distance travelled", "concept": [ "filter" ], "topics": [ "auk_distance" ] }, { "page": "auk_duration", "title": "Filter the eBird data by duration", "concept": [ "filter" ], "topics": [ "auk_duration" ] }, { "page": "auk_ebd", "title": "Reference to eBird data file", "concept": [ "objects" ], "topics": [ "auk_ebd" ] }, { "page": "auk_ebd_version", "title": "Get the EBD version and associated taxonomy version", "concept": [ "helpers" ], "topics": [ "auk_ebd_version" ] }, { "page": "auk_exotic", "title": "Filter the eBird data by exotic code", "concept": [ "filter" ], "topics": [ "auk_exotic" ] }, { "page": "auk_extent", "title": "Filter the eBird data by spatial extent", "concept": [ "filter" ], "topics": [ "auk_extent" ] }, { "page": "auk_filter", "title": "Filter the eBird file using AWK", "concept": [ "filter" ], "topics": [ "auk_filter", "auk_filter.auk_ebd", "auk_filter.auk_sampling" ] }, { "page": "auk_get_awk_path", "title": "OS specific path to AWK executable", "concept": [ "paths" ], "topics": [ "auk_get_awk_path" ] }, { "page": "auk_get_ebd_path", "title": "Return EBD data path", "concept": [ "paths" ], "topics": [ "auk_get_ebd_path" ] }, { "page": "auk_last_edited", "title": "Filter the eBird data by last edited date", "concept": [ "filter" ], "topics": [ "auk_last_edited" ] }, { "page": "auk_observer", "title": "Filter the eBird data by observer", "concept": [ "filter" ], "topics": [ "auk_observer" ] }, { "page": "auk_project", "title": "Filter the eBird data by project code", "concept": [ "filter" ], "topics": [ "auk_project" ] }, { "page": "auk_protocol", "title": "Filter the eBird data by protocol", "concept": [ "filter" ], "topics": [ "auk_protocol" ] }, { "page": "auk_rollup", "title": "Roll up eBird taxonomy to species", "concept": [ "pre" ], "topics": [ "auk_rollup" ] }, { "page": "auk_sampling", "title": "Reference to eBird sampling event file", "concept": [ "objects" ], "topics": [ "auk_sampling" ] }, { "page": "auk_select", "title": "Select a subset of columns", "concept": [ "text" ], "topics": [ "auk_select" ] }, { "page": "auk_set_awk_path", "title": "Set a custom path to AWK executable", "concept": [ "paths" ], "topics": [ "auk_set_awk_path" ] }, { "page": "auk_set_ebd_path", "title": "Set the path to EBD text files", "concept": [ "paths" ], "topics": [ "auk_set_ebd_path" ] }, { "page": "auk_species", "title": "Filter the eBird data by species", "concept": [ "filter" ], "topics": [ "auk_species" ] }, { "page": "auk_split", "title": "Split an eBird data file by species", "concept": [ "text" ], "topics": [ "auk_split" ] }, { "page": "auk_state", "title": "Filter the eBird data by state", "concept": [ "filter" ], "topics": [ "auk_state" ] }, { "page": "auk_time", "title": "Filter the eBird data by checklist start time", "concept": [ "filter" ], "topics": [ "auk_time" ] }, { "page": "auk_unique", "title": "Remove duplicate group checklists", "concept": [ "pre" ], "topics": [ "auk_unique" ] }, { "page": "auk_version", "title": "Versions of auk, the EBD, and the eBird taxonomy", "concept": [ "helpers" ], "topics": [ "auk_version" ] }, { "page": "auk_year", "title": "Filter the eBird data to a set of years", "concept": [ "filter" ], "topics": [ "auk_year" ] }, { "page": "auk_zerofill", "title": "Read and zero-fill an eBird data file", "concept": [ "import" ], "topics": [ "auk_zerofill", "auk_zerofill.auk_ebd", "auk_zerofill.character", "auk_zerofill.data.frame", "collapse_zerofill" ] }, { "page": "bcr_codes", "title": "BCR Codes", "concept": [ "data" ], "topics": [ "bcr_codes" ] }, { "page": "ebird_species", "title": "Lookup species in eBird taxonomy", "concept": [ "helpers" ], "topics": [ "ebird_species" ] }, { "page": "ebird_states", "title": "eBird States", "concept": [ "data" ], "topics": [ "ebird_states" ] }, { "page": "ebird_taxonomy", "title": "eBird Taxonomy", "concept": [ "data" ], "topics": [ "ebird_taxonomy" ] }, { "page": "filter_repeat_visits", "title": "Filter observations to repeat visits for hierarchical modeling", "concept": [ "modeling" ], "topics": [ "filter_repeat_visits" ] }, { "page": "format_unmarked_occu", "title": "Format EBD data for occupancy modeling with 'unmarked'", "concept": [ "modeling" ], "topics": [ "format_unmarked_occu" ] }, { "page": "get_ebird_taxonomy", "title": "Get eBird taxonomy via the eBird API", "concept": [ "helpers" ], "topics": [ "get_ebird_taxonomy" ] }, { "page": "process_barcharts", "title": "Process eBird bar chart data", "concept": [ "helpers" ], "topics": [ "process_barcharts" ] }, { "page": "read_ebd", "title": "Read an EBD file", "concept": [ "import" ], "topics": [ "read_ebd", "read_ebd.auk_ebd", "read_ebd.character", "read_sampling", "read_sampling.auk_ebd", "read_sampling.auk_sampling", "read_sampling.character" ] }, { "page": "valid_protocols", "title": "Valid Protocols", "concept": [ "data" ], "topics": [ "valid_protocols" ] } ], "_pkglogo": "https://github.com/CornellLabofOrnithology/auk/raw/main/logo.png", "_readme": "https://github.com/CornellLabofOrnithology/auk/raw/main/README.md", "_rundeps": [ "askpass", "assertthat", "bit", "bit64", "cli", "clipr", "countrycode", "cpp11", "crayon", "curl", "dplyr", "generics", "glue", "hms", "httr2", "lifecycle", "magrittr", "openssl", "pillar", "pkgconfig", "prettyunits", "progress", "purrr", "R6", "rappdirs", "readr", "rlang", "stringi", "stringr", "sys", "tibble", "tidyr", "tidyselect", "tzdb", "utf8", "vctrs", "vroom", "withr" ], "_vignettes": [ { "source": "development.Rmd", "filename": "development.html", "title": "auk development", "engine": "knitr::rmarkdown", "headings": [ "Updating the eBird taxonomy", "Adding new filters", "1. Update auk_ebd()", "2. Create filter function", "3. Update auk_filter()", "4. Unit tests", "5. Update vignette and README", "6. Build, test, check, and push to GitHub", "CRAN submission" ], "created": "2017-10-12 02:08:31", "modified": "2025-12-17 10:50:05", "commits": 9 }, { "source": "auk.Rmd", "filename": "auk.html", "title": "Introduction to auk", "engine": "knitr::rmarkdown", "headings": [ "Quick start", "Background", "The eBird Basic Dataset", "auk vs. rebird", "Data access", "Example data", "AWK", "A note on versions", "Presence data", "The auk_ebd object", "Defining filters", "Executing filters", "Reading", "Saving the AWK command", "Group checklists", "Taxonomic rollup", "Zero-filled, presence-absence data", "Filtering", "Reading and zero-filling", "Acknowledgements", "References" ], "created": "2017-07-01 21:31:47", "modified": "2026-01-12 21:08:01", "commits": 34 } ], "_score": 10.117740054104704, "_indexed": true, "_nocasepkg": "auk", "_universes": [ "ropensci", "mstrimas", "cornelllabofornithology" ], "_binaries": [ { "r": "4.6.0", "os": "linux", "version": "0.9.2", "date": "2026-04-19T05:01:04.000Z", "distro": "noble", "commit": "e2fc3cda779ccef3a25961dec7c940cefd2f3729", "fileid": "cc8e48a8f7ea8b9e2ef4086d8aea01328c74510e666f212e029d74ad227c95ac", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/24621351255" }, { "r": "4.5.3", "os": "mac", "version": "0.9.2", "date": "2026-04-19T05:00:37.000Z", "commit": "e2fc3cda779ccef3a25961dec7c940cefd2f3729", "fileid": "72d737c5ce99fa5397202e3ce0683b728192d363431267ad5ea2defe3cbef0f4", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/24621351255" }, { "r": "4.6.0", "os": "mac", "version": "0.9.2", "date": "2026-04-19T05:00:33.000Z", "commit": "e2fc3cda779ccef3a25961dec7c940cefd2f3729", "fileid": "249e3b8ff5b30edd429b641d78cd312862720ecb2ce1db25932d6f7d17d2c525", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/24621351255" }, { "r": "4.5.1", "os": "wasm", "version": "0.9.2", "date": "2026-04-19T05:01:20.000Z", "commit": "e2fc3cda779ccef3a25961dec7c940cefd2f3729", "fileid": "61b3eb2477de9cdcef6fbb95e9af0cf3ab7d0496d3149959d1777e406f2861c1", "status": "success", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/24621351255" }, { "r": "4.7.0", "os": "win", "version": "0.9.2", "date": "2026-04-19T05:00:35.000Z", "commit": "e2fc3cda779ccef3a25961dec7c940cefd2f3729", "fileid": "a069b1527333991003dfb16e1081da7413f465d4b9b78919d97f7b18584df2e4", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/24621351255" }, { "r": "4.5.3", "os": "win", "version": "0.9.2", "date": "2026-04-19T05:00:19.000Z", "commit": "e2fc3cda779ccef3a25961dec7c940cefd2f3729", "fileid": "bbaaf0205b7fe080aa59e810a220d518081ce4d4a261672664d8d77b787728c5", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/24621351255" }, { "r": "4.6.0", "os": "win", "version": "0.9.2", "date": "2026-04-19T05:00:20.000Z", "commit": "e2fc3cda779ccef3a25961dec7c940cefd2f3729", "fileid": "5fdbcbeae611b4ccb42448b46036e8659a341ddf8627a861884e06cb7c2c7b26", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/24621351255" } ] }