{ "_id": "6abe26ae99f7aa8c6aa52e1a", "Package": "shiftR", "Type": "Package", "Title": "Fast Enrichment Analysis via Circular Permutations", "Version": "1.5", "Date": "2019-03-21", "Authors@R": "c(person(\"Andrey A\", \"Shabalin\",\nrole = c(\"aut\", \"cre\"),\nemail = \"andrey.shabalin@gmail.com\",\ncomment = c(ORCID = \"0000-0003-0309-6821\")),\nperson(\"Edwin J C G\", \"van den Oord\",\nemail = \"ejvandenoord@vcu.edu\",\nrole = \"aut\"))", "Description": "Fast enrichment analysis for locally correlated statistics\nvia circular permutations. The analysis can be performed at\nmultiple significance thresholds for both primary and auxiliary\ndata sets with efficient correction for multiple testing.", "BugReports": "https://github.com/andreyshabalin/shiftR/issues", "URL": "https://github.com/andreyshabalin/shiftR", "License": "LGPL-3", "VignetteBuilder": "knitr", "Repository": "https://andreyshabalin.r-universe.dev", "Date/Publication": "2019-03-23 07:38:48 UTC", "RemoteUrl": "https://github.com/andreyshabalin/shiftr", "RemoteRef": "HEAD", "RemoteSha": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-10-01 09:15:25 UTC", "User": "root" }, "Author": "Andrey A Shabalin [aut, cre] (ORCID:\n),\nEdwin J C G van den Oord [aut]", "Maintainer": "Andrey A Shabalin ", "_user": "andreyshabalin", "_type": "src", "_file": "shiftR_1.5.tar.gz", "_fileid": "https://r2.ropensci.org/b0933726f9d9e7e8cdc60205b40c51f166d7d16e603b8d96163f093e48dc46e0", "_filesize": 140051, "_sha256": "b0933726f9d9e7e8cdc60205b40c51f166d7d16e603b8d96163f093e48dc46e0", "_expires": "2027-01-09T09:23:56.000Z", "_created": "2026-10-01T09:15:25.000Z", "_published": "2026-10-01T09:23:57.933Z", "_jobs": [ { "job": 110301616476, "time": 105, "config": "linux-devel-arm64", "r": "4.7.0", "check": "NOTE", "artifact": "11151138353" }, { "job": 110301616531, "time": 122, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "11151429344" }, { "job": 110301616648, "time": 98, "config": "linux-release-arm64", "r": "4.6.1", "check": "NOTE", "artifact": "11151269227" }, { "job": 110301616611, "time": 139, "config": "linux-release-x86_64", "r": "4.6.1", "check": "NOTE", "artifact": "11150799075" }, { "job": 110301616386, "time": 203, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "11151429539" }, { "job": 110301616582, "time": 479, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "NOTE", "artifact": "11151584286" }, { "job": 110301616512, "time": 158, "config": "macos-release-arm64", "r": "4.6.1", "check": "NOTE", "artifact": "11150619322" }, { "job": 110301616630, "time": 284, "config": "macos-release-x86_64", "r": "4.6.1", "check": "NOTE", "artifact": "11150519853" }, { "job": 110300552584, "time": 179, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "11150683741" }, { "job": 110301616427, "time": 87, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "11151721431" }, { "job": 110301616540, "time": 333, "config": "windows-devel-arm64", "r": "4.7.0", "check": "NOTE", "artifact": "11151905776" }, { "job": 110301616602, "time": 109, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "11151384073" }, { "job": 110301616585, "time": 90, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "NOTE", "artifact": "11151379358" }, { "job": 110301616565, "time": 326, "config": "windows-release-arm64", "r": "4.6.1", "check": "NOTE", "artifact": "11151034048" }, { "job": 110301616568, "time": 86, "config": "windows-release-x86_64", "r": "4.6.1", "check": "NOTE", "artifact": "11151048485" } ], "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/andreyshabalin/actions/runs/36841189137", "_status": "success", "_upstream": "https://github.com/andreyshabalin/shiftr", "_commit": { "id": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "author": "Andrey A Shabalin ", "committer": "Andrey A Shabalin ", "message": "Polish\n", "time": 1553326728 }, "_maintainer": { "name": "Andrey A Shabalin", "email": "andrey.shabalin@gmail.com", "login": "andreyshabalin", "description": "", "uuid": 17608988, "orcid": "0000-0003-0309-6821" }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "parallel", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "pander", "role": "Suggests" } ], "_owner": "andreyshabalin", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 1, "_contributors": [ { "user": "andreyshabalin", "count": 98, "uuid": 17608988 } ], "_userbio": { "uuid": 17608988, "type": "user", "name": "Andrey Shabalin", "followers": 32 }, "_downloads": { "count": 342, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/shiftR" }, "_mentions": 2, "_devurl": "https://github.com/andreyshabalin/shiftr", "_searchresults": 13, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/manual.pdf", "extra/readme.html", "extra/readme.md", "extra/shiftR.html" ], "_homeurl": "https://github.com/andreyshabalin/shiftr", "_realowner": "andreyshabalin", "_cranurl": true, "_releases": [ { "version": "1.2", "date": "2018-01-13" }, { "version": "1.4", "date": "2018-03-03" }, { "version": "1.5", "date": "2019-04-08" }, { "version": "1.6", "date": "2026-09-08" } ], "_exports": [ "cramerV", "enrichmentAnalysis", "getNOffsetsMax", "getOffsetsAll", "getOffsetsRandom", "getOffsetsUniform", "matchDatasets", "shiftrPermBinary", "shiftrPrepareLeft", "shiftrPrepareRight", "simulateBinary", "simulateNumeric", "simulatePValues", "singlePermutation" ], "_help": [ { "page": "shiftR-package", "title": "Fast Enrichment Analysis via Circular Permutations", "topics": [ "shiftR-package" ] }, { "page": "cramerV", "title": "Calculate Cramer's V (phi) Coefficient", "topics": [ "cramerV" ] }, { "page": "enrichmentAnalysis", "title": "Fast Enrichment Testing via Circular Permutations on Non-Binary Outcomes", "topics": [ "enrichmentAnalysis" ] }, { "page": "getOffsets", "title": "Generate Random or Uniformly Spaced Permutation Offsets", "topics": [ "getNOffsetsMax", "getOffsetsAll", "getOffsetsRandom", "getOffsetsUniform" ] }, { "page": "matchDatasets", "title": "Match Two Data Sets by Location", "topics": [ "matchDatasets" ] }, { "page": "shiftrPermBinary", "title": "Fast Enrichment Testing on Binary Outcomes via Circular Permutations", "topics": [ "shiftrPermBinary" ] }, { "page": "shiftrPrepare", "title": "Prepare Data for Fast Circular Permutation Analysis", "topics": [ "shiftrPrepareLeft", "shiftrPrepareRight" ] }, { "page": "simulate", "title": "Generate Artificial Data for Tests and Illustrations", "topics": [ "simulateBinary", "simulateNumeric", "simulatePValues" ] }, { "page": "singlePermutation", "title": "Count Feature Overlap Under a Permutation", "topics": [ "singlePermutation" ] } ], "_readme": "https://github.com/andreyshabalin/shiftr/raw/HEAD/README.md", "_rundeps": [], "_vignettes": [ { "source": "intro.Rmd", "filename": "intro.html", "title": "Overview of shiftR Package", "engine": "knitr::rmarkdown", "headings": [ "Overview", "Permutation analysis on matched binary data sets", "Enrichment testing for two sets of p-values \\", "Enrichment testing with shiftR", "Matching data sets by location" ], "created": "2017-08-22 08:15:40", "modified": "2018-01-15 22:57:40", "commits": 3 } ], "_score": 4.113943352306837, "_indexed": true, "_nocasepkg": "shiftr", "_universes": [ "andreyshabalin" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.5", "date": "2026-10-01T09:17:15.000Z", "distro": "resolute", "arch": "aarch64", "commit": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "fileid": "https://r2.ropensci.org/d1a717d34e5728ad8edfb2812f0577b49ba8a4496268f32e225e40bcf7fe34ea", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/andreyshabalin/actions/runs/36841189137" }, { "r": "4.7.0", "os": "linux", "version": "1.5", "date": "2026-10-01T09:17:26.000Z", "distro": "resolute", "arch": "x86_64", "commit": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "fileid": "https://r2.ropensci.org/3e8865ddd166b3bbe78e6d65b07fbc654edfbe4c6c70ca496f32b37ef9174c0c", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/andreyshabalin/actions/runs/36841189137" }, { "r": "4.6.1", "os": "linux", "version": "1.5", "date": "2026-10-01T09:17:12.000Z", "distro": "resolute", "arch": "aarch64", "commit": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "fileid": "https://r2.ropensci.org/db6c26618ec0af37d24132efc3d6afcecfd3ac8cafb9a5022c88a84b40e31e8f", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/andreyshabalin/actions/runs/36841189137" }, { "r": "4.6.1", "os": "linux", "version": "1.5", "date": "2026-10-01T09:17:46.000Z", "distro": "resolute", "arch": "x86_64", "commit": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "fileid": "https://r2.ropensci.org/4cc17a86bce67d159b84f9e1ea1b74edf134b335e62a7bba3d85f3b6f17d1ab1", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/andreyshabalin/actions/runs/36841189137" }, { "r": "4.5.3", "os": "mac", "version": "1.5", "date": "2026-10-01T09:18:18.000Z", "arch": "aarch64", "commit": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "fileid": "https://r2.ropensci.org/0cf49b70f47581fe8f7376b2a0ecdf5ad1737c2af200078627b2cf868f1e703b", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/andreyshabalin/actions/runs/36841189137" }, { "r": "4.5.3", "os": "mac", "version": "1.5", "date": "2026-10-01T09:22:49.000Z", "arch": "x86_64", "commit": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "fileid": "https://r2.ropensci.org/c6daff5cd587afee0e54e1b20087182f90381621a4899e3f4dd518abecb7ff12", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/andreyshabalin/actions/runs/36841189137" }, { "r": "4.6.1", "os": "mac", "version": "1.5", "date": "2026-10-01T09:17:36.000Z", "arch": "aarch64", "commit": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "fileid": "https://r2.ropensci.org/7cce9cb9618421b67637760bafa85b8147122361a5f5eadcb31f19c10003c582", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/andreyshabalin/actions/runs/36841189137" }, { "r": "4.6.1", "os": "mac", "version": "1.5", "date": "2026-10-01T09:19:21.000Z", "arch": "x86_64", "commit": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "fileid": "https://r2.ropensci.org/33e9d014e1b165dfa69838554dd18d246e5684b7ae2c43a89f2e3dedf857854d", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/andreyshabalin/actions/runs/36841189137" }, { "r": "4.6.0", "os": "wasm", "version": "1.5", "date": "2026-10-01T09:17:07.000Z", "arch": "emscripten", "commit": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "fileid": "https://r2.ropensci.org/049c4ac20c738f58e32a21fa1985e094368fdbd4eaff366670e0999a51600199", "status": "success", "buildurl": "https://github.com/r-universe/andreyshabalin/actions/runs/36841189137" }, { "r": "4.7.0", "os": "win", "version": "1.5", "date": "2026-10-01T09:20:28.000Z", "arch": "aarch64", "commit": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "fileid": "https://r2.ropensci.org/c0dfc8b3d5837f6709425e66c3b4928e69783d31d47d49f137a5d3a3b2911408", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/andreyshabalin/actions/runs/36841189137" }, { "r": "4.7.0", "os": "win", "version": "1.5", "date": "2026-10-01T09:16:34.000Z", "arch": "x86_64", "commit": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "fileid": "https://r2.ropensci.org/1db0bf0c5dcc2703fd0a581ebf7bd197b7424633ce95ccada28fff69e70a2f2f", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/andreyshabalin/actions/runs/36841189137" }, { "r": "4.5.3", "os": "win", "version": "1.5", "date": "2026-10-01T09:16:44.000Z", "arch": "x86_64", "commit": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "fileid": "https://r2.ropensci.org/620658721d2b1ea373545cc48edc0543270d7524371b93224c6e47d6d7a1adc6", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/andreyshabalin/actions/runs/36841189137" }, { "r": "4.6.1", "os": "win", "version": "1.5", "date": "2026-10-01T09:20:13.000Z", "arch": "aarch64", "commit": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "fileid": "https://r2.ropensci.org/2baad3bd9d7737b42a57cb1ac75bff3d701b37912147bc31802940738af74ea6", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/andreyshabalin/actions/runs/36841189137" }, { "r": "4.6.1", "os": "win", "version": "1.5", "date": "2026-10-01T09:16:45.000Z", "arch": "x86_64", "commit": "5a28fc6ed061383bad8d9e56457dbcef6d9cf3d0", "fileid": "https://r2.ropensci.org/1e5e748794585446572aba841776e26b6cf636d565ab3edfdc04a13b27c40412", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/andreyshabalin/actions/runs/36841189137" } ] }