{ "_id": "6abcd07999f7aa8c6aa4c2f9", "Package": "fst4pg", "Title": "Genetic Distance Segmentation for Population Genetics", "Version": "1.0.0", "Date": "2022-06-15", "Authors@R": "c(\nperson(\"Tristan\", \"Mary-Huard\", , \"tristan.mary-huard@agroparistech.fr\", role = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0002-3839-9067\")),\nperson(\"Guillem\", \"Rigaill\", , \"guillem.rigaill@inrae.fr\", role = \"aut\",\ncomment = c(ORCID = \"0000-0002-7176-7511\"))\n)", "Description": "Provides efficient methods to compute local and genome\nwide genetic distances (corresponding to the so called Hudson\nFst parameters) through moment method, perform chromosome\nsegmentation into homogeneous Fst genomic regions, and\nselection sweep detection for multi-population comparison. When\nmultiple profile segmentation is required, the procedure can be\nparallelized using the future package.", "License": "GPL (>= 2)", "LazyData": "true", "RoxygenNote": "7.2.0", "NeedsCompilation": "no", "Packaged": { "Date": "2026-09-30 08:28:17 UTC", "User": "root" }, "Author": "Tristan Mary-Huard [aut, cre]\n(), Guillem Rigaill\n[aut] ()", "Maintainer": "Tristan Mary-Huard ", "Config/pak/sysreqs": "libicu-dev", "Repository": "https://tmaryhuard.r-universe.dev", "Date/Publication": "2022-07-03 17:20:02 UTC", "RemoteUrl": "https://github.com/cran/fst4pg", "RemoteRef": "HEAD", "RemoteSha": "0f43b332a8a631a35e2ba67ed750d6269ffcd867", "_user": "tmaryhuard", "_type": "src", "_file": "fst4pg_1.0.0.tar.gz", "_fileid": "https://r2.ropensci.org/681bac276fa15c78ed97e47c5683adbb4c82dd9db922175abe45403c213274db", "_filesize": 1020275, "_sha256": "681bac276fa15c78ed97e47c5683adbb4c82dd9db922175abe45403c213274db", "_expires": "2027-01-08T09:03:51.000Z", "_created": "2026-09-30T08:28:17.000Z", "_published": "2026-09-30T09:03:53.332Z", "_jobs": [ { "job": 109804450932, "time": 140, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "11085651075" }, { "job": 109804450983, "time": 150, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "11085093805" }, { "job": 109804451045, "time": 199, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "11086658132" }, { "job": 109804450969, "time": 217, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "11086368490" }, { "job": 109803292593, "time": 209, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "11085590770" }, { "job": 109804450938, "time": 123, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "11084849191" }, { "job": 109804451050, "time": 87, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "11085182928" }, { "job": 109804451095, "time": 95, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "11084284674" }, { "job": 109804450920, "time": 85, "config": "windows-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "11085158186" } ], "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/tmaryhuard/actions/runs/36689532936", "_status": "success", "_upstream": "https://github.com/cran/fst4pg", "_commit": { "id": "0f43b332a8a631a35e2ba67ed750d6269ffcd867", "author": "Tristan Mary-Huard ", "committer": "cran-robot ", "message": "version 1.0.0\n", "time": 1656868802 }, "_maintainer": { "name": "Tristan Mary-Huard", "email": "tristan.mary-huard@agroparistech.fr", "login": "tmaryhuard", "description": "", "uuid": 71508740, "orcid": "0000-0002-3839-9067" }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.10", "role": "Depends" }, { "package": "dplyr", "role": "Imports" }, { "package": "fpopw", "role": "Imports" }, { "package": "furrr", "role": "Imports" }, { "package": "future", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "gplots", "role": "Imports" }, { "package": "graphics", "role": "Imports" }, { "package": "grDevices", "role": "Imports" }, { "package": "purrr", "role": "Imports" }, { "package": "rlang", "role": "Imports" }, { "package": "scales", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "stringr", "role": "Imports" }, { "package": "tibble", "role": "Imports" }, { "package": "tidyr", "role": "Imports" }, { "package": "utils", "role": "Imports" } ], "_owner": "cran", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 0, "_contributors": [ { "user": "tmaryhuard", "count": 1, "uuid": 71508740 } ], "_userbio": { "uuid": 71508740, "type": "user", "name": "tmaryhuard", "followers": 0 }, "_downloads": { "count": 310, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/fst4pg" }, "_searchresults": 0, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/fst4pg.html", "extra/manual.pdf" ], "_realowner": "tmaryhuard", "_cranurl": false, "_releases": [ { "version": "1.0.0", "date": "2022-07-03" } ], "_exports": [ "BuildFreqNbG", "ContrastGraphSummary", "ContrastSummary", "ContrastTopRegions", "Freq.filt", "HeatMap", "HudsonFst.gw", "HudsonFst.m", "HudsonFst.plot", "HudsonFst.prof", "MakeProfile.op", "MakeProfile.sn_nomemory", "ProfilingSummary", "RawPlot" ], "_datasets": [ { "name": "Freq", "title": "Frequencies of the American and European HGDP populations", "object": "Freq", "class": [ "matrix", "array" ], "fields": [ "Colombian", "Karitiana", "Maya", "Pima", "Surui", "Adygei", "French", "Basque", "Italian", "Orcadian", "Russian", "Sardinian", "Tuscan" ], "rows": 49636, "table": true, "tojson": true }, { "name": "Info", "title": "Marker information", "object": "Info", "class": [ "tbl_df", "tbl", "data.frame" ], "fields": [ "MARKER", "CHR", "POS", "Ref", "Alt" ], "rows": 49636, "table": true, "tojson": true }, { "name": "NbGamete", "title": "Number of gametes of the American and European HGDP populations", "object": "NbGamete", "class": [ "matrix", "array" ], "fields": [ "Colombian", "Karitiana", "Maya", "Pima", "Surui", "Adygei", "French", "Basque", "Italian", "Orcadian", "Russian", "Sardinian", "Tuscan" ], "rows": 49636, "table": true, "tojson": true } ], "_help": [ { "page": "BuildFreqNbG", "title": "Convert the Freq and NbGamete tables into a list.", "topics": [ "BuildFreqNbG" ] }, { "page": "Compute_Denominator", "title": "Computation of the numerator of the moment estimator", "topics": [ "Compute_Denominator" ] }, { "page": "Compute_Nominator", "title": "Computation of the numerator of the moment estimator", "topics": [ "Compute_Nominator" ] }, { "page": "ContrastGraphSummary", "title": "ContrastGraphSummary", "topics": [ "ContrastGraphSummary" ] }, { "page": "ContrastSummary", "title": "ContrastSummary", "topics": [ "ContrastSummary" ] }, { "page": "ContrastTopRegions", "title": "ContrastTopRegions", "topics": [ "ContrastTopRegions" ] }, { "page": "DF4Plot1Prof", "title": "DF4Plot1Prof", "topics": [ "DF4Plot1Prof" ] }, { "page": "Freq", "title": "Frequencies of the American and European HGDP populations", "topics": [ "Freq" ] }, { "page": "Freq.filt", "title": "Filtering markers based on allelic frequencies", "topics": [ "Freq.filt" ] }, { "page": "HeatMap", "title": "HeatMap", "topics": [ "HeatMap" ] }, { "page": "HudsonFst.gw", "title": "HudsonFst.gw", "topics": [ "HudsonFst.gw" ] }, { "page": "HudsonFst.m", "title": "HudsonFst.m", "topics": [ "HudsonFst.m" ] }, { "page": "HudsonFst.plot", "title": "Plot Fst values along chromosomes", "topics": [ "HudsonFst.plot" ] }, { "page": "HudsonFst.prof", "title": "HudsonFst.prof", "topics": [ "HudsonFst.prof" ] }, { "page": "Info", "title": "Marker information", "topics": [ "Info" ] }, { "page": "MakeProfile.op", "title": "MakeProfile.op", "topics": [ "MakeProfile.op" ] }, { "page": "MakeProfile.sn_nomemory", "title": "MakeProfile.sn_nomemory", "topics": [ "MakeProfile.sn_nomemory" ] }, { "page": "MergeRegion", "title": "MergeRegion", "topics": [ "MergeRegion" ] }, { "page": "NbGamete", "title": "Number of gametes of the American and European HGDP populations", "topics": [ "NbGamete" ] }, { "page": "Plot1Prof", "title": "Plot1Prof", "topics": [ "Plot1Prof" ] }, { "page": "ProfilingSummary", "title": "ProfilingSummary", "topics": [ "ProfilingSummary" ] }, { "page": "Ratio_Average", "title": "Computation of the Fst moment estimator", "topics": [ "Ratio_Average" ] }, { "page": "RawPlot", "title": "RawPlot", "topics": [ "RawPlot" ] }, { "page": "Summarise1Profile", "title": "Summarise1Profile", "topics": [ "Summarise1Profile" ] } ], "_rundeps": [ "bitops", "caTools", "cli", "codetools", "cpp11", "digest", "dplyr", "farver", "fpopw", "furrr", "future", "generics", "ggplot2", "globals", "glue", "gplots", "gtable", "gtools", "isoband", "KernSmooth", "labeling", "lifecycle", "listenv", "magrittr", "parallelly", "pillar", "pkgconfig", "purrr", "R6", "RColorBrewer", "rlang", "S7", "scales", "stringi", "stringr", "tibble", "tidyr", "tidyselect", "utf8", "vctrs", "viridisLite", "withr" ], "_score": 1, "_indexed": true, "_nocasepkg": "fst4pg", "_universes": [ "tmaryhuard" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.0.0", "date": "2026-09-30T08:30:25.000Z", "distro": "resolute", "commit": "0f43b332a8a631a35e2ba67ed750d6269ffcd867", "fileid": "https://r2.ropensci.org/c65ad11e579dd428173975df15eeb7bb02eec8821c75db9957c8b405c76e077e", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tmaryhuard/actions/runs/36689532936" }, { "r": "4.6.1", "os": "linux", "version": "1.0.0", "date": "2026-09-30T08:30:33.000Z", "distro": "resolute", "commit": "0f43b332a8a631a35e2ba67ed750d6269ffcd867", "fileid": "https://r2.ropensci.org/ec33c19bf85f570726fb0d999b581c98fabf614ce3d46ff59a6c89afe84efcbd", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tmaryhuard/actions/runs/36689532936" }, { "r": "4.5.3", "os": "mac", "version": "1.0.0", "date": "2026-09-30T09:02:20.000Z", "commit": "0f43b332a8a631a35e2ba67ed750d6269ffcd867", "fileid": "https://r2.ropensci.org/bf807de37478d4beab7bf4b82c86cb9b43155133c5064921016ee2766c5a0f7a", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tmaryhuard/actions/runs/36689532936" }, { "r": "4.6.1", "os": "mac", "version": "1.0.0", "date": "2026-09-30T08:58:51.000Z", "commit": "0f43b332a8a631a35e2ba67ed750d6269ffcd867", "fileid": "https://r2.ropensci.org/e961b2585ad328a4dfd0f95f3427a447ca70893e7c02ea67bf1ea09f0ccf5cc5", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tmaryhuard/actions/runs/36689532936" }, { "r": "4.6.0", "os": "wasm", "version": "1.0.0", "date": "2026-09-30T08:30:35.000Z", "commit": "0f43b332a8a631a35e2ba67ed750d6269ffcd867", "fileid": "https://r2.ropensci.org/88ab016f3a0753c8906ebfb8ed14c2fadf202f1073f3692575a33f457408b915", "status": "success", "buildurl": "https://github.com/r-universe/tmaryhuard/actions/runs/36689532936" }, { "r": "4.7.0", "os": "win", "version": "1.0.0", "date": "2026-09-30T08:29:33.000Z", "commit": "0f43b332a8a631a35e2ba67ed750d6269ffcd867", "fileid": "https://r2.ropensci.org/a80cfdf17a542f2887d4f6910b84b5560299b2e031de0f48ca8a1f5fe955e534", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tmaryhuard/actions/runs/36689532936" }, { "r": "4.5.3", "os": "win", "version": "1.0.0", "date": "2026-09-30T08:29:31.000Z", "commit": "0f43b332a8a631a35e2ba67ed750d6269ffcd867", "fileid": "https://r2.ropensci.org/417b95dd14fa382577e2f91748d1283105f685498fac5c0c12989c367af4df21", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tmaryhuard/actions/runs/36689532936" }, { "r": "4.6.1", "os": "win", "version": "1.0.0", "date": "2026-09-30T08:29:28.000Z", "commit": "0f43b332a8a631a35e2ba67ed750d6269ffcd867", "fileid": "https://r2.ropensci.org/8adaae15253b5514ffe188666194b5d7b8e18cedebfccfb763284ef4d9c6f9a1", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tmaryhuard/actions/runs/36689532936" } ] }