{
"_id": "6a5c699d9baadeef8ab4faac",
"Package": "popbayes",
"Type": "Package",
"Version": "1.3",
"Title": "Bayesian Model to Estimate Population Trends from Counts Series",
"Authors@R": "c(\nperson(\ngiven = \"Nicolas\",\nfamily = \"Casajus\",\nemail = \"nicolas.casajus@fondationbiodiversite.fr\",\nrole = c(\"aut\", \"cre\", \"cph\"),\ncomment = c(ORCID = \"0000-0002-5537-5294\")),\nperson(\ngiven = \"Roger\",\nfamily = \"Pradel\",\nemail = \"roger.pradel@cefe.cnrs.fr\",\nrole = \"aut\",\ncomment = c(ORCID = \"0000-0002-2684-9251\")))",
"Description": "Infers the trends of one or several animal populations\nover time from series of counts. It does so by accounting for\ncount precision (provided or inferred based on expert\nknowledge, e.g. guesstimates), smoothing the population rate of\nincrease over time, and accounting for the maximum demographic\npotential of species. Inference is carried out in a Bayesian\nframework. This work is part of the FRB-CESAB working group\nAfroBioDrivers\n.",
"URL": "https://frbcesab.github.io/popbayes/,\nhttps://github.com/frbcesab/popbayes",
"BugReports": "https://github.com/frbcesab/popbayes/issues",
"License": "GPL (>= 2)",
"Encoding": "UTF-8",
"LazyData": "true",
"NeedsCompilation": "no",
"SystemRequirements": "JAGS (>= 4.1)",
"Roxygen": "list(markdown = TRUE)",
"RoxygenNote": "7.3.3",
"VignetteBuilder": "knitr",
"Config/pak/sysreqs": "jags libicu-dev",
"Repository": "https://frbcesab.r-universe.dev",
"Date/Publication": "2026-04-20 10:12:06 UTC",
"RemoteUrl": "https://github.com/FRBCesab/popbayes",
"RemoteRef": "HEAD",
"RemoteSha": "ab98f6510b159448710a0d1873eb7e4e153850ab",
"Packaged": {
"Date": "2026-07-19 06:04:29 UTC",
"User": "root"
},
"Author": "Nicolas Casajus [aut, cre, cph] (ORCID:\n),\nRoger Pradel [aut] (ORCID: )",
"Maintainer": "Nicolas Casajus ",
"_user": "frbcesab",
"_type": "src",
"_file": "popbayes_1.3.tar.gz",
"_fileid": "https://r2.ropensci.org/f6ee1bedf2b443653605f9aa30f675ace0800c8b22582fad1ad5746095b013fe",
"_filesize": 2557856,
"_sha256": "f6ee1bedf2b443653605f9aa30f675ace0800c8b22582fad1ad5746095b013fe",
"_expires": "2026-10-27T06:07:22.000Z",
"_created": "2026-07-19T06:04:29.000Z",
"_published": "2026-07-19T06:07:24.948Z",
"_jobs": [
{
"job": 88163055334,
"time": 135,
"config": "linux-devel-x86_64",
"r": "4.7.0",
"check": "OK",
"artifact": "8438860808"
},
{
"job": 88163055372,
"time": 136,
"config": "linux-release-x86_64",
"r": "4.6.1",
"check": "OK",
"artifact": "8438860874"
},
{
"job": 88163055332,
"time": 85,
"config": "macos-oldrel-arm64",
"r": "4.5.3",
"check": "OK",
"artifact": "8438857038"
},
{
"job": 88163055316,
"time": 72,
"config": "macos-release-arm64",
"r": "4.6.1",
"check": "OK",
"artifact": "8438849563"
},
{
"job": 88162806801,
"time": 188,
"config": "source",
"r": "4.6.1",
"check": "OK",
"artifact": "8438838474"
},
{
"job": 88163055313,
"time": 103,
"config": "wasm-release",
"r": "4.6.0",
"check": "OK",
"artifact": "8438855364"
},
{
"job": 88163055333,
"time": 58,
"config": "windows-devel",
"r": "4.7.0",
"check": "OK",
"artifact": "8438847695"
},
{
"job": 88163055357,
"time": 74,
"config": "windows-oldrel",
"r": "4.5.3",
"check": "OK",
"artifact": "8438849999"
},
{
"job": 88163055335,
"time": 75,
"config": "windows-release",
"r": "4.6.1",
"check": "OK",
"artifact": "8438850332"
}
],
"_host": "GitHub-Actions",
"_buildurl": "https://github.com/r-universe/frbcesab/actions/runs/29675756046",
"_status": "success",
"_upstream": "https://github.com/FRBCesab/popbayes",
"_commit": {
"id": "ab98f6510b159448710a0d1873eb7e4e153850ab",
"author": "Nicolas Casajus <10423581+ahasverus@users.noreply.github.com>",
"committer": "Nicolas Casajus <10423581+ahasverus@users.noreply.github.com>",
"message": "doc: update version in description\n",
"time": 1776679926
},
"_maintainer": {
"name": "Nicolas Casajus",
"email": "nicolas.casajus@fondationbiodiversite.fr",
"login": "ahasverus",
"description": "Data scientist",
"uuid": 10423581,
"orcid": "0000-0002-5537-5294"
},
"_distro": "resolute",
"_registered": true,
"_dependencies": [
{
"package": "R",
"version": ">= 3.5",
"role": "Depends"
},
{
"package": "graphics",
"role": "Imports"
},
{
"package": "grDevices",
"role": "Imports"
},
{
"package": "R2jags",
"role": "Imports"
},
{
"package": "stats",
"role": "Imports"
},
{
"package": "cli",
"role": "Imports"
},
{
"package": "knitr",
"role": "Suggests"
},
{
"package": "rmarkdown",
"role": "Suggests"
}
],
"_owner": "frbcesab",
"_selfowned": true,
"_usedby": 0,
"_updates": [
{
"week": "2026-17",
"n": 9
}
],
"_tags": [
{
"name": "v1.3",
"date": "2026-04-20"
}
],
"_topics": [
"animal",
"bayesian",
"counts",
"population",
"precision",
"temporal-trend",
"jags",
"cpp"
],
"_stars": 1,
"_contributors": [
{
"user": "ahasverus",
"count": 165,
"uuid": 10423581
},
{
"user": "parguel",
"count": 29,
"uuid": 42118846
},
{
"user": "olivroy",
"count": 7,
"uuid": 52606734
}
],
"_userbio": {
"uuid": 56294308,
"type": "organization",
"name": "FRB CESAB",
"followers": 47
},
"_downloads": {
"count": 368,
"source": "https://cranlogs.r-pkg.org/downloads/total/last-month/popbayes"
},
"_devurl": "https://github.com/frbcesab/popbayes",
"_pkgdown": "https://frbcesab.github.io/popbayes/",
"_searchresults": 2,
"_rbuild": "4.6.1",
"_assets": [
"extra/citation.cff",
"extra/citation.html",
"extra/citation.json",
"extra/citation.txt",
"extra/contents.json",
"extra/NEWS.html",
"extra/NEWS.txt",
"extra/popbayes.html",
"extra/readme.html",
"extra/readme.md",
"manual.pdf"
],
"_homeurl": "https://github.com/frbcesab/popbayes",
"_realowner": "frbcesab",
"_cranurl": true,
"_releases": [
{
"version": "1.0",
"date": "2021-11-05"
},
{
"version": "1.1",
"date": "2022-03-04"
},
{
"version": "1.2.0",
"date": "2023-06-15"
},
{
"version": "1.3",
"date": "2026-04-20"
}
],
"_exports": [
"bugs_to_df",
"diagnostic",
"filter_series",
"fit_trend",
"format_data",
"list_series",
"plot_series",
"plot_trend",
"read_bugs",
"read_series",
"series_to_df",
"w_to_rmax"
],
"_datasets": [
{
"name": "garamba",
"title": "African mammals survey in the Garamba National Park",
"object": "garamba",
"class": [
"data.frame"
],
"fields": [
"location",
"species",
"date",
"stat_method",
"field_method",
"count",
"lower_ci",
"upper_ci",
"pref_field_method",
"conversion_A2G",
"rmax"
],
"rows": 141,
"table": true,
"tojson": true
},
{
"name": "species_info",
"title": "Species information dataset",
"object": "species_info",
"class": [
"data.frame"
],
"fields": [
"order",
"family",
"species",
"english",
"french",
"category",
"pref_field_method",
"conversion_A2G",
"rmax"
],
"rows": 15,
"table": true,
"tojson": true
}
],
"_help": [
{
"page": "bugs_to_df",
"title": "Extract estimated parameters from a list of BUGS outputs",
"topics": [
"bugs_to_df"
]
},
{
"page": "diagnostic",
"title": "Check if a BUGS model has converged",
"topics": [
"diagnostic"
]
},
{
"page": "filter_series",
"title": "Extract the count series corresponding to a location and/or a species",
"topics": [
"filter_series"
]
},
{
"page": "fit_trend",
"title": "Fit a Bayesian model to estimate population size trend",
"topics": [
"fit_trend"
]
},
{
"page": "format_data",
"title": "Format count series",
"topics": [
"format_data"
]
},
{
"page": "garamba",
"title": "African mammals survey in the Garamba National Park",
"topics": [
"garamba"
]
},
{
"page": "list_series",
"title": "Retrieve the count series names",
"topics": [
"list_series"
]
},
{
"page": "plot_series",
"title": "Plot original vs converted counts",
"topics": [
"plot_series"
]
},
{
"page": "plot_trend",
"title": "Plot estimated population trend",
"topics": [
"plot_trend"
]
},
{
"page": "read_bugs",
"title": "Import a list of BUGS outputs previously exported",
"topics": [
"read_bugs"
]
},
{
"page": "read_series",
"title": "Import a list of count series previously exported",
"topics": [
"read_series"
]
},
{
"page": "series_to_df",
"title": "Extract original/converted count series data from a list",
"topics": [
"series_to_df"
]
},
{
"page": "species_info",
"title": "Species information dataset",
"topics": [
"species_info"
]
},
{
"page": "w_to_rmax",
"title": "Compute rmax from adult female body mass",
"topics": [
"w_to_rmax"
]
}
],
"_pkglogo": "https://github.com/FRBCesab/popbayes/raw/HEAD/man/figures/logo.png",
"_readme": "https://github.com/FRBCesab/popbayes/raw/HEAD/README.md",
"_rundeps": [
"abind",
"boot",
"cli",
"coda",
"glue",
"lattice",
"lifecycle",
"magrittr",
"R2jags",
"R2WinBUGS",
"rjags",
"rlang",
"stringi",
"stringr",
"vctrs"
],
"_sysdeps": [
{
"shlib": "libjags",
"package": "jags",
"headers": "jags",
"source": "jags",
"version": "4.3.2-2.2604.0",
"name": "jags",
"homepage": "https://mcmc-jags.sourceforge.io",
"description": "Just Another Gibbs Sampler for Bayesian MCMC - binary"
},
{
"shlib": "libstdc++",
"package": "libstdc++6",
"source": "gcc",
"version": "16-20260322-1ubuntu1",
"name": "c++",
"homepage": "http://gcc.gnu.org/",
"description": "GNU Standard C++ Library v3"
}
],
"_vignettes": [
{
"source": "generate_data.Rmd",
"filename": "generate_data.html",
"title": "Get species information",
"engine": "knitr::rmarkdown",
"headings": [
"Calculating rmax",
"Building conversion table",
"Categorizing species",
"References"
],
"created": "2021-05-16 09:18:51",
"modified": "2021-10-29 15:34:29",
"commits": 3
},
{
"source": "popbayes.rmd",
"filename": "popbayes.html",
"title": "Get started",
"engine": "knitr::rmarkdown",
"headings": [
"Statistical method",
"Field method",
"Count conversion",
"Relative rate of increase",
"Checking data",
"Formatting data",
"Fitting trend",
"References"
],
"created": "2019-10-30 09:27:54",
"modified": "2023-06-15 07:48:03",
"commits": 25
}
],
"_score": 4.301029995663981,
"_indexed": true,
"_nocasepkg": "popbayes",
"_universes": [
"frbcesab",
"ahasverus"
],
"_binaries": [
{
"r": "4.7.0",
"os": "linux",
"version": "1.3",
"date": "2026-07-19T06:06:46.000Z",
"distro": "resolute",
"commit": "ab98f6510b159448710a0d1873eb7e4e153850ab",
"fileid": "https://r2.ropensci.org/c94095854f24ba917904a2c5f955d6cd5234b8bc7153d53449ed6de5f773fb7f",
"status": "success",
"check": "OK",
"buildurl": "https://github.com/r-universe/frbcesab/actions/runs/29675756046"
},
{
"r": "4.6.1",
"os": "linux",
"version": "1.3",
"date": "2026-07-19T06:06:48.000Z",
"distro": "resolute",
"commit": "ab98f6510b159448710a0d1873eb7e4e153850ab",
"fileid": "https://r2.ropensci.org/7a250d9d0fd9f467cf35fa1a862399171bdb5467b87b68eba5cd9f6c772e196c",
"status": "success",
"check": "OK",
"buildurl": "https://github.com/r-universe/frbcesab/actions/runs/29675756046"
},
{
"r": "4.5.3",
"os": "mac",
"version": "1.3",
"date": "2026-07-19T06:06:32.000Z",
"commit": "ab98f6510b159448710a0d1873eb7e4e153850ab",
"fileid": "https://r2.ropensci.org/68b7c41f94fab37f31869a1c350470e1ad6ad1066a4e5285ee9ef4393a0f1df9",
"status": "success",
"check": "OK",
"buildurl": "https://github.com/r-universe/frbcesab/actions/runs/29675756046"
},
{
"r": "4.6.1",
"os": "mac",
"version": "1.3",
"date": "2026-07-19T06:05:50.000Z",
"commit": "ab98f6510b159448710a0d1873eb7e4e153850ab",
"fileid": "https://r2.ropensci.org/57d11eb60e1e328fd42698299c596624bdd497477ff49d0abaec4cd212dd158b",
"status": "success",
"check": "OK",
"buildurl": "https://github.com/r-universe/frbcesab/actions/runs/29675756046"
},
{
"r": "4.6.0",
"os": "wasm",
"version": "1.3",
"date": "2026-07-19T06:06:31.000Z",
"commit": "ab98f6510b159448710a0d1873eb7e4e153850ab",
"fileid": "https://r2.ropensci.org/dac979c6e9f46644366a830849c9defb8e07184ef57f9cc2e88fb55841e568ef",
"status": "success",
"buildurl": "https://github.com/r-universe/frbcesab/actions/runs/29675756046"
},
{
"r": "4.7.0",
"os": "win",
"version": "1.3",
"date": "2026-07-19T06:05:34.000Z",
"commit": "ab98f6510b159448710a0d1873eb7e4e153850ab",
"fileid": "https://r2.ropensci.org/ea087f448f3dee2088f9d635f2df3450e871741be0a0448c30e734cf3c115798",
"status": "success",
"check": "OK",
"buildurl": "https://github.com/r-universe/frbcesab/actions/runs/29675756046"
},
{
"r": "4.5.3",
"os": "win",
"version": "1.3",
"date": "2026-07-19T06:05:43.000Z",
"commit": "ab98f6510b159448710a0d1873eb7e4e153850ab",
"fileid": "https://r2.ropensci.org/07a27c02656b908bbe550ee21c3d3c2ef68688e08e176548b598c1f61279048a",
"status": "success",
"check": "OK",
"buildurl": "https://github.com/r-universe/frbcesab/actions/runs/29675756046"
},
{
"r": "4.6.1",
"os": "win",
"version": "1.3",
"date": "2026-07-19T06:05:46.000Z",
"commit": "ab98f6510b159448710a0d1873eb7e4e153850ab",
"fileid": "https://r2.ropensci.org/b950fa8dbe92fa8775eda10c59fcb6aae372c6214e54bf44c8df5e566bdeca92",
"status": "success",
"check": "OK",
"buildurl": "https://github.com/r-universe/frbcesab/actions/runs/29675756046"
}
]
}