{ "_id": "6ae765fb9ceaa78f20099fee", "Package": "GSRI", "Type": "Package", "Title": "Gene Set Regulation Index", "Version": "2.61.0", "Author": "Julian Gehring, Kilian Bartholome, Clemens Kreutz, Jens Timmer", "Maintainer": "Julian Gehring ", "Description": "The GSRI package estimates the number of differentially\nexpressed genes in gene sets, utilizing the concept of the Gene\nSet Regulation Index (GSRI).", "License": "GPL-3", "LazyLoad": "yes", "biocViews": "Microarray, Transcription, DifferentialExpression,\nGeneSetEnrichment, GeneRegulation", "Config/pak/sysreqs": "libpng-dev libxml2-dev libssl-dev zlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:34:38 UTC", "RemoteUrl": "https://github.com/bioc/GSRI", "RemoteRef": "HEAD", "RemoteSha": "a3035fe48e9cf9fe2577b0a3286c47218ff1d314", "NeedsCompilation": "no", "Packaged": { "Date": "2026-11-01 13:49:32 UTC", "User": "root" }, "_user": "bioc", "_type": "src", "_file": "GSRI_2.61.0.tar.gz", "_fileid": "https://r2.ropensci.org/71765642c26b5de7fc206118571409055ff5d88f77d4f088f8c822d5092d45f6", "_filesize": 375535, "_sha256": "71765642c26b5de7fc206118571409055ff5d88f77d4f088f8c822d5092d45f6", "_expires": "2027-02-09T16:16:56.000Z", "_created": "2026-11-01T13:49:32.000Z", "_published": "2026-11-01T16:16:59.199Z", "_upstream": "https://github.com/bioc/GSRI", "_status": "success", "_maintainer": { "name": "Julian Gehring", "email": "jg-bioc@gmx.com" }, "_jobs": [ { "job": 124867650318, "time": 152, "config": "bioc-checks", "r": "4.6.2", "check": "ERROR", "artifact": "13086698297" }, { "job": 124867650402, "time": 267, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "13086708293" }, { "job": 124867650334, "time": 233, "config": "linux-release-x86_64", "r": "4.6.2", "check": "OK", "artifact": "13087560133" }, { "job": 124867650389, "time": 180, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "13091230816" }, { "job": 124867650548, "time": 218, "config": "macos-release-arm64", "r": "4.6.2", "check": "OK", "artifact": "13090938742" }, { "job": 124860286451, "time": 316, "config": "source", "r": "4.6.2", "check": "OK", "artifact": "13086397215" }, { "job": 124867650312, "time": 119, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "13085814990" }, { "job": 124867650306, "time": 152, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "13086327991" }, { "job": 124867650352, "time": 180, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "13085692909" }, { "job": 124867650299, "time": 167, "config": "windows-release-x86_64", "r": "4.6.2", "check": "OK", "artifact": "13086243325" } ], "_bioccheck": { "error": 2, "warning": 3, "note": 12 }, "_buildurl": "https://github.com/r-universe/bioc/actions/runs/41309970963", "_commit": { "id": "a3035fe48e9cf9fe2577b0a3286c47218ff1d314", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777379678 }, "_distro": "resolute", "_host": "GitHub-Actions", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.14.2", "role": "Depends" }, { "package": "fdrtool", "role": "Depends" }, { "package": "methods", "role": "Imports" }, { "package": "graphics", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "genefilter", "role": "Imports" }, { "package": "Biobase", "role": "Imports" }, { "package": "GSEABase", "role": "Imports" }, { "package": "les", "version": ">= 1.1.6", "role": "Imports" }, { "package": "limma", "role": "Suggests" }, { "package": "hgu95av2.db", "role": "Suggests" }, { "package": "parallel", "role": "Enhances" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "2.61.0", "bioc": "3.24", "repository": "bioc" }, { "branch": "release", "version": "2.60.0", "bioc": "3.23", "repository": "bioc" } ], "_topics": [ "microarray", "transcription", "differentialexpression", "genesetenrichment", "generegulation" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "followers": 482, "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 675, "source": "https://www.bioconductor.org/packages/stats/bioc/GSRI" }, "_searchresults": 4, "_abi": { "exports": [ { "key": "GSRI::Gsri", "hash": "3c15ae688eec178c" }, { "key": "GSRI::generic:export", "hash": "f4a43ec4b89118da" }, { "key": "GSRI::generic:getCdf", "hash": "55af2a49a33956e9" }, { "key": "GSRI::generic:getGsri", "hash": "9311ceaf4424fac8" }, { "key": "GSRI::generic:getParms", "hash": "9b06f8fe68ad7e80" }, { "key": "GSRI::generic:gsri", "hash": "af47130193bac962" }, { "key": "GSRI::generic:readCls", "hash": "bff1c1e1485ec874" }, { "key": "GSRI::generic:readGct", "hash": "8fd3b1b5225e1b27" }, { "key": "GSRI::generic:sortGsri", "hash": "768fbf6db9ffb333" } ], "imports": [] }, "_rbuild": "4.6.2", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/GSRI.html", "extra/manual.pdf", "extra/NEWS.html", "extra/NEWS.txt" ], "_realowner": "bioc", "_cranurl": false, "_exports": [ "export", "getCdf", "getGsri", "getParms", "gsri", "plot", "readCls", "readGct", "rowF", "rowt", "show", "sortGsri", "summary" ], "_help": [ { "page": "GSRI-package", "title": "Gene Set Regulation Index (GSRI) package", "topics": [ "GSRI-package", "GSRI" ] }, { "page": "export", "title": "Export results to file", "topics": [ "export", "export,Gsri,character-method" ] }, { "page": "get-methods", "title": "Get methods for 'Gsri' class", "topics": [ "getCdf", "getCdf,Gsri,ANY-method", "getCdf,Gsri,missing-method", "getGsri", "getGsri,Gsri,ANY-method", "getGsri,Gsri,missing-method", "getParms", "getParms,Gsri-method" ] }, { "page": "gsri", "title": "Methods for the Gene Set Regulation Index (GSRI)", "topics": [ "gsri", "gsri,ExpressionSet,factor,GeneSet-method", "gsri,ExpressionSet,factor,GeneSetCollection-method", "gsri,ExpressionSet,factor,missing-method", "gsri,matrix,factor,GeneSet-method", "gsri,matrix,factor,GeneSetCollection-method", "gsri,matrix,factor,missing-method", "gsri-methods" ] }, { "page": "Gsri-class", "title": "Class 'Gsri'", "topics": [ "Gsri", "Gsri-class", "show", "show,Gsri-method", "summary", "summary,Gsri-method" ] }, { "page": "plot", "title": "Visualize GSRI results", "topics": [ "plot", "plot,Gsri,ANY-method", "plot,Gsri,integer-method" ] }, { "page": "read-functions", "title": "Import of '.cls' and '.gct' files", "topics": [ "readCls", "readCls,character-method", "readGct", "readGct,character-method" ] }, { "page": "sortGsri", "title": "Sort GSRI results", "topics": [ "sortGsri", "sortGsri,Gsri-method", "sortGsri-methods" ] }, { "page": "test-functions", "title": "Statistical test functions", "topics": [ "limmat", "rowF", "rowt" ] } ], "_rundeps": [ "annotate", "AnnotationDbi", "askpass", "Biobase", "BiocBaseUtils", "BiocGenerics", "Biostrings", "bit", "bit64", "bitops", "blob", "boot", "cachem", "caTools", "cli", "cpp11", "crayon", "curl", "DBI", "fastmap", "fdrtool", "genefilter", "generics", "glue", "gplots", "graph", "GSEABase", "gtools", "httr", "IRanges", "jsonlite", "KEGGREST", "KernSmooth", "lattice", "les", "lifecycle", "Matrix", "MatrixGenerics", "matrixStats", "memoise", "mime", "openssl", "pkgconfig", "png", "R6", "RColorBrewer", "rlang", "RSQLite", "S4Vectors", "Seqinfo", "survival", "sys", "vctrs", "XML", "xtable", "XVector" ], "_vignettes": [ { "source": "gsri.Rnw", "filename": "gsri.pdf", "title": "Introduction to the GSRI package: Estimating Regulatory Effects utilizing the Gene Set Regulation Index", "engine": "utils::Sweave", "headings": [ "Introduction", "Data set", "Analysis for a single gene set", "Analysis for multiple gene sets", "Adaption of statistical tests", "Visualization", "Weighting of genes in gene sets" ], "created": "2012-03-11 15:23:34", "modified": "2012-03-11 15:23:34", "commits": 1 } ], "_score": 3.3010299956639813, "_indexed": true, "_nocasepkg": "gsri", "_universes": [ "bioc" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "2.61.0", "date": "2026-11-01T14:15:35.000Z", "distro": "resolute", "commit": "a3035fe48e9cf9fe2577b0a3286c47218ff1d314", "fileid": "https://r2.ropensci.org/eb12478ab0a4c29bcd79badedf07bf05b57f43fdcdefc9fbe1d58bc605266650", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/41309970963" }, { "r": "4.6.2", "os": "linux", "version": "2.61.0", "date": "2026-11-01T14:15:08.000Z", "distro": "resolute", "commit": "a3035fe48e9cf9fe2577b0a3286c47218ff1d314", "fileid": "https://r2.ropensci.org/8ab44b4494ac5f147548cb02ab2c22696ba67e503139a9a415e7d4d9788beee5", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/41309970963" }, { "r": "4.5.3", "os": "mac", "version": "2.61.0", "date": "2026-11-01T16:14:21.000Z", "commit": "a3035fe48e9cf9fe2577b0a3286c47218ff1d314", "fileid": "https://r2.ropensci.org/2788ba8247be2753ef406d69b73bcc229ecc329975c5cd392a9802fd3963d6a2", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/41309970963" }, { "r": "4.6.2", "os": "mac", "version": "2.61.0", "date": "2026-11-01T16:14:49.000Z", "commit": "a3035fe48e9cf9fe2577b0a3286c47218ff1d314", "fileid": "https://r2.ropensci.org/a56ccbe0d30c962dc145f900e1743e0f3cf0b4afd131db7c271c0af888e59e66", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/41309970963" }, { "r": "4.6.0", "os": "wasm", "version": "2.61.0", "date": "2026-11-01T14:14:26.000Z", "commit": "a3035fe48e9cf9fe2577b0a3286c47218ff1d314", "fileid": "https://r2.ropensci.org/d56bbf27919f3a533f7b6557db0d8a8252f08e307c99a52b22eed103a46772bb", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/41309970963" }, { "r": "4.7.0", "os": "win", "version": "2.61.0", "date": "2026-11-01T13:51:27.000Z", "commit": "a3035fe48e9cf9fe2577b0a3286c47218ff1d314", "fileid": "https://r2.ropensci.org/5892fa3bea7b58a4ce36a286182b906259f4bc92025dac4717acef18cfb39716", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/41309970963" }, { "r": "4.5.3", "os": "win", "version": "2.61.0", "date": "2026-11-01T13:51:39.000Z", "commit": "a3035fe48e9cf9fe2577b0a3286c47218ff1d314", "fileid": "https://r2.ropensci.org/21829e39f61cc1378cab7fd85717ebe99db7a53b56def6f656d5849aaa729f6c", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/41309970963" }, { "r": "4.6.2", "os": "win", "version": "2.61.0", "date": "2026-11-01T13:51:37.000Z", "commit": "a3035fe48e9cf9fe2577b0a3286c47218ff1d314", "fileid": "https://r2.ropensci.org/de17673d70a9c9038ed1f6a3ff45aa01996f442e816078d530f0f4959a90b772", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/41309970963" } ] }