{ "_id": "6a1a75ed1d7bb097a09d1f5c", "Package": "twigstats", "Type": "Package", "Title": "twigstats", "Version": "1.0.2", "Encoding": "UTF-8", "Date": "2022-02-02", "Authors@R": "as.person(c(\n\"Leo Speidel [aut, cre]\",\n\"Pontus Skoglund [aut]\"\n))", "Maintainer": "Leo Speidel ", "Description": "This package takes Relate genealogies as input to compute\ntime-stratified f-statistics.", "License": "MIT", "SystemRequirements": "zlib", "URL": "https://github.com/leospeidel/twigstats", "BugReports": "https://github.com/leospeidel/twigstats/issues", "Config/testthat/edition": "3", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.2", "VignetteBuilder": "knitr", "Config/pak/sysreqs": "cmake make libicu-dev libuv1-dev zlib1g-dev", "Repository": "https://leospeidel.r-universe.dev", "Date/Publication": "2025-08-01 13:34:20 UTC", "RemoteUrl": "https://github.com/leospeidel/twigstats", "RemoteRef": "HEAD", "RemoteSha": "502f3749b23532110905b6f089f223824fc15ae8", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-05-28 06:10:49 UTC", "User": "root" }, "Author": "Leo Speidel [aut, cre],\nPontus Skoglund [aut]", "MD5sum": "029b82aeab193d3d51a620cd56c5f296", "_user": "leospeidel", "_type": "src", "_file": "twigstats_1.0.2.tar.gz", "_fileid": "789500fb1c95a4bea21a4a5c09876bbd9fd3854f16cd2b94e626d5a72870a3ce", "_filesize": 94213100, "_sha256": "789500fb1c95a4bea21a4a5c09876bbd9fd3854f16cd2b94e626d5a72870a3ce", "_created": "2026-05-28T06:10:49.000Z", "_published": "2026-05-30T05:30:21.696Z", "_distro": "noble", "_jobs": [ { "job": 78626259758, "time": 274, "config": "linux-devel-arm64", "r": "4.7.0", "check": "ERROR", "artifact": "7305642266" }, { "job": 78626259770, "time": 274, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "7305642334" }, { "job": 78626259772, "time": 271, "config": "linux-release-arm64", "r": "4.6.0", "check": "ERROR", "artifact": "7305641992" }, { "job": 78626259762, "time": 266, "config": "linux-release-x86_64", "r": "4.6.0", "check": "ERROR", "artifact": "7305641579" }, { "job": 78626259755, "time": 230, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "ERROR", "artifact": "7305637661" }, { "job": 78626259752, "time": 782, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "ERROR", "artifact": "7305693752" }, { "job": 78626259767, "time": 283, "config": "macos-release-arm64", "r": "4.6.0", "check": "ERROR", "artifact": "7305643141" }, { "job": 78626259764, "time": 516, "config": "macos-release-x86_64", "r": "4.6.0", "check": "ERROR", "artifact": "7305667265" }, { "job": 78626259799, "time": 294, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7258912085" }, { "job": 78626259977, "time": 191, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7258956030" }, { "job": 78626259763, "time": 213, "config": "windows-devel", "r": "4.7.0", "check": "FAIL", "artifact": "" }, { "job": 78626259761, "time": 109, "config": "windows-oldrel", "r": "4.5.3", "check": "FAIL", "artifact": "" }, { "job": 78626259759, "time": 181, "config": "windows-release", "r": "4.6.0", "check": "FAIL", "artifact": "" } ], "_buildurl": "https://github.com/r-universe/leospeidel/actions/runs/26557906703", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/leospeidel/twigstats", "_commit": { "id": "502f3749b23532110905b6f089f223824fc15ae8", "author": "Leo Speidel ", "committer": "Leo Speidel ", "message": "Fixed bug in Fst\n", "time": 1754055260 }, "_maintainer": { "name": "Leo Speidel", "email": "leo.speidel@outlook.com", "login": "leospeidel", "description": "", "uuid": 16124799 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.5.0", "role": "Depends" }, { "package": "dplyr", "role": "Depends" }, { "package": "tidyr", "role": "Depends" }, { "package": "testthat", "role": "LinkingTo" }, { "package": "Rcpp", "role": "LinkingTo" }, { "package": "RcppArmadillo", "role": "LinkingTo" }, { "package": "Rcpp", "version": ">= 1.0.7", "role": "Imports" }, { "package": "RcppArmadillo", "role": "Imports" }, { "package": "xml2", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "lsei", "role": "Suggests" } ], "_owner": "leospeidel", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-26", "n": 1 }, { "week": "2025-31", "n": 1 } ], "_tags": [], "_stars": 16, "_contributors": [ { "user": "leospeidel", "count": 63, "uuid": 16124799 } ], "_userbio": { "uuid": 16124799, "type": "user", "name": "Leo Speidel" }, "_downloads": { "count": 0, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/twigstats" }, "_devurl": "https://github.com/leospeidel/twigstats", "_searchresults": 12, "_topics": [ "cpp" ], "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/readme.html", "extra/readme.md", "extra/twigstats.html", "manual.pdf" ], "_cranurl": false, "_exports": [ "calc_mds", "calcf2", "D_from_Relate", "ExpPaintingProfile", "f2_blocks_from_Relate", "f2_blocks_from_RelateAges", "f4_ratio", "Fst_blocks_from_Relate", "jackknife", "Painting", "PaintingNNLS", "PaintingProfile", "PaintingProfileR", "run_testthat_tests", "theoretical_zscore", "TMRCA_from_Relate", "TMRCAdist_from_Relate", "TwigScan" ], "_help": [ { "page": "mds", "title": "Function that computes a PCA and MDS from f2_blocks", "topics": [ "calc_mds" ] }, { "page": "D_from_Relate", "title": "Function to calculate D statistics from Relate trees.", "topics": [ "D_from_Relate" ] }, { "page": "f2_blocks_from_Relate", "title": "Function to calculate f2 statistics from Relate trees for pairs of populations specified in poplabels.", "topics": [ "f2_blocks_from_Relate" ] }, { "page": "f2_blocks_from_RelateAges", "title": "Function to calculate f2 statistics from plink files, ascertained using mutation ages in Relate trees.", "topics": [ "f2_blocks_from_RelateAges" ] }, { "page": "f-statistics", "title": "Function implementing the F4-ratio statistic", "topics": [ "f4_ratio", "jackknife" ] }, { "page": "Fst_blocks_from_Relate", "title": "Function to calculate Fst from Relate trees for pairs of populations specified in poplabels.", "topics": [ "Fst_blocks_from_Relate" ] }, { "page": "Painting", "title": "Chromosome painting using genealogies.", "topics": [ "Painting" ] }, { "page": "PaintingNNLS", "title": "Function to run an NNLS on genome-wide copying proportions to estimate admixture proportions.", "topics": [ "PaintingNNLS" ] }, { "page": "PaintingProfile", "title": "Function to compute genome-wide copying proportions.", "topics": [ "PaintingProfile" ] }, { "page": "theoretical_zscore", "title": "Function to compute a theoretical z-score given source split times and admixture proportions.", "topics": [ "theoretical_zscore" ] }, { "page": "TwigScan", "title": "Function implementing TwigScan", "topics": [ "TwigScan" ] } ], "_pkglogo": "https://github.com/leospeidel/twigstats/raw/HEAD/man/figures/logo.png", "_readme": "https://github.com/leospeidel/twigstats/raw/HEAD/README.md", "_rundeps": [ "brio", "callr", "cli", "cpp11", "crayon", "desc", "diffobj", "dplyr", "evaluate", "fs", "generics", "glue", "jsonlite", "lifecycle", "magrittr", "pillar", "pkgbuild", "pkgconfig", "pkgload", "praise", "processx", "ps", "purrr", "R6", "Rcpp", "RcppArmadillo", "rlang", "rprojroot", "stringi", "stringr", "testthat", "tibble", "tidyr", "tidyselect", "utf8", "vctrs", "waldo", "withr" ], "_sysdeps": [ { "shlib": "libstdc++", "package": "libstdc++6", "source": "gcc", "version": "14.2.0-4ubuntu2~24.04.1", "name": "c++", "homepage": "http://gcc.gnu.org/", "description": "GNU Standard C++ Library v3" } ], "_score": 3.2833012287035497, "_indexed": true, "_nocasepkg": "twigstats", "_universes": [ "leospeidel" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.0.2", "date": "2026-05-30T05:18:45.000Z", "distro": "noble", "arch": "aarch64", "commit": "502f3749b23532110905b6f089f223824fc15ae8", "fileid": "a3f0f0702b706ecd1d08a21c166a2f2e5b2ed6b3c9eeb43de1f55d918783fa1a", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/leospeidel/actions/runs/26557906703" }, { "r": "4.7.0", "os": "linux", "version": "1.0.2", "date": "2026-05-30T05:18:46.000Z", "distro": "noble", "arch": "x86_64", "commit": "502f3749b23532110905b6f089f223824fc15ae8", "fileid": "acc05757de45f3d480c237d11012e79cdd1422796dd33b013de362f863e99ac8", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/leospeidel/actions/runs/26557906703" }, { "r": "4.6.0", "os": "linux", "version": "1.0.2", "date": "2026-05-30T05:18:39.000Z", "distro": "noble", "arch": "aarch64", "commit": "502f3749b23532110905b6f089f223824fc15ae8", "fileid": "85fe8692f5f0bfd738551273c40ea64bfb0ae7c71e2c8e9e094ccf6c0b123405", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/leospeidel/actions/runs/26557906703" }, { "r": "4.6.0", "os": "linux", "version": "1.0.2", "date": "2026-05-30T05:18:45.000Z", "distro": "noble", "arch": "x86_64", "commit": "502f3749b23532110905b6f089f223824fc15ae8", "fileid": "76ead371f445af4c3f84a9954c70d4fa42000be12615f52c424b288bf030aa4e", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/leospeidel/actions/runs/26557906703" }, { "r": "4.5.3", "os": "mac", "version": "1.0.2", "date": "2026-05-30T05:18:45.000Z", "arch": "aarch64", "commit": "502f3749b23532110905b6f089f223824fc15ae8", "fileid": "2a7c1e76c4c793733bb65a46050548c0b93d26064e12c0bbf701c647bc8d55a9", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/leospeidel/actions/runs/26557906703" }, { "r": "4.5.3", "os": "mac", "version": "1.0.2", "date": "2026-05-30T05:23:51.000Z", "arch": "x86_64", "commit": "502f3749b23532110905b6f089f223824fc15ae8", "fileid": "eb4ae1ba2e72fe5dee91957d1ad8404703965c325da342252ebb95b2edfd2bd0", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/leospeidel/actions/runs/26557906703" }, { "r": "4.6.0", "os": "mac", "version": "1.0.2", "date": "2026-05-30T05:18:51.000Z", "arch": "aarch64", "commit": "502f3749b23532110905b6f089f223824fc15ae8", "fileid": "4ca408fd979fa716a08146d07db314408e3b0d2ad9527efa7078b45c687fc276", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/leospeidel/actions/runs/26557906703" }, { "r": "4.6.0", "os": "mac", "version": "1.0.2", "date": "2026-05-30T05:20:32.000Z", "arch": "x86_64", "commit": "502f3749b23532110905b6f089f223824fc15ae8", "fileid": "fb9077860b554b39702b2afed30835fe0cd10ea29c3902781a4b31b51e7b1825", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/leospeidel/actions/runs/26557906703" }, { "r": "4.6.0", "os": "wasm", "version": "1.0.2", "date": "2026-05-28T06:14:44.000Z", "arch": "emscripten", "commit": "502f3749b23532110905b6f089f223824fc15ae8", "fileid": "f83f826c759d03539a59559349aa1dd751a82e2c2e3d9b2ed2f563459b4f461e", "status": "success", "buildurl": "https://github.com/r-universe/leospeidel/actions/runs/26557906703" } ] }