{ "_id": "6a494bcef6c47c4419499285", "Package": "fdrame", "Title": "FDR adjustments of Microarray Experiments (FDR-AME)", "Version": "1.85.0", "Author": "Yoav Benjamini, Effi Kenigsberg, Anat Reiner, Daniel Yekutieli", "Description": "This package contains two main functions. The first is\nfdr.ma which takes normalized expression data array,\nexperimental design and computes adjusted p-values It returns\nthe fdr adjusted p-values and plots, according to the methods\ndescribed in (Reiner, Yekutieli and Benjamini 2002). The\nsecond, is fdr.gui() which creates a simple graphic user\ninterface to access fdr.ma", "Maintainer": "Effi Kenigsberg ", "License": "GPL (>= 2)", "biocViews": "Microarray, DifferentialExpression, MultipleComparison", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:31:16 UTC", "RemoteUrl": "https://github.com/bioc/fdrame", "RemoteRef": "HEAD", "RemoteSha": "ec88f73bd3a8b589f1eaa5a53346734b881263c6", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-07-03 18:42:40 UTC", "User": "root" }, "_user": "bioc", "_type": "src", "_file": "fdrame_1.85.0.tar.gz", "_fileid": "https://r2.ropensci.org/61ed7543500d1cf458ec22eacd1d1c436c1e60025bd27b80320da677bcca39bf", "_filesize": 1026390, "_sha256": "61ed7543500d1cf458ec22eacd1d1c436c1e60025bd27b80320da677bcca39bf", "_expires": "2026-10-12T18:07:09.000Z", "_created": "2026-07-03T18:42:40.000Z", "_published": "2026-07-04T18:07:10.904Z", "_bioccheck": { "error": 2, "warning": 3, "note": 14 }, "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/bioc/actions/runs/28678002145", "_status": "success", "_upstream": "https://github.com/bioc/fdrame", "_commit": { "id": "ec88f73bd3a8b589f1eaa5a53346734b881263c6", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777379476 }, "_maintainer": { "name": "Effi Kenigsberg", "email": "effiken.fdrame@gmail.com" }, "_distro": "resolute", "_jobs": [ { "job": 85154868141, "time": 126, "config": "bioc-checks", "r": "4.6.1", "check": "ERROR", "artifact": "8073104630" }, { "job": 85154868137, "time": 123, "config": "linux-devel-arm64", "r": "4.7.0", "check": "NOTE", "artifact": "8073104510" }, { "job": 85154868172, "time": 130, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "8073105327" }, { "job": 85154868402, "time": 216, "config": "linux-release-arm64", "r": "4.6.1", "check": "NOTE", "artifact": "8073124296" }, { "job": 85154868230, "time": 155, "config": "linux-release-x86_64", "r": "4.6.1", "check": "NOTE", "artifact": "8073110906" }, { "job": 85154868387, "time": 77, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "8073094115" }, { "job": 85154868158, "time": 162, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "NOTE", "artifact": "8073112232" }, { "job": 85154868330, "time": 87, "config": "macos-release-arm64", "r": "4.6.1", "check": "NOTE", "artifact": "8073096131" }, { "job": 85154868239, "time": 179, "config": "macos-release-x86_64", "r": "4.6.1", "check": "NOTE", "artifact": "8073116007" }, { "job": 85154867968, "time": 124, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "8073076531" }, { "job": 85154868305, "time": 80, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "8073094822" }, { "job": 85154868154, "time": 69, "config": "windows-devel", "r": "4.7.0", "check": "NOTE", "artifact": "8073092317" }, { "job": 85154868325, "time": 69, "config": "windows-oldrel", "r": "4.5.3", "check": "NOTE", "artifact": "8073092267" }, { "job": 85154868363, "time": 86, "config": "windows-release", "r": "4.6.1", "check": "NOTE", "artifact": "8073096316" } ], "_registered": true, "_dependencies": [ { "package": "tcltk", "role": "Imports" }, { "package": "graphics", "role": "Imports" }, { "package": "grDevices", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "utils", "role": "Imports" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.85.0", "bioc": "3.24" }, { "branch": "release", "version": "1.84.0", "bioc": "3.23" } ], "_topics": [ "microarray", "differentialexpression", "multiplecomparison" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "followers": 445, "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_searchresults": 0, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/fdrame.html", "manual.pdf" ], "_realowner": "bioc", "_cranurl": false, "_exports": [ "compute.f.statistic", "compute.resampling.stat", "compute.statistic", "compute.t.statistic", "fdr.adaptive.c", "fdr.adaptive.c.resampling", "fdr.basic.comp", "fdr.bh", "fdr.error", "fdr.gui", "fdr.ma", "fdr.plot", "fdr.pt", "fdr.q", "fdr.qu", "gene.expression.normalization", "get.resampling.statistic.array", "OnBrowseDesign", "OnBrowseInput", "OnBrowseOutput", "OnCancel", "OnCbfa1", "OnCbfa2", "OnCbfa3", "OnCbfa4", "OnCompute", "OnHelp", "OnOK", "OnRbfa1", "OnRbfa2", "OnRbfa3", "OnRbfa4", "OnRbpm1", "OnRbpm2", "read.matrix" ], "_datasets": [ { "name": "design", "title": "Experimental design", "object": "design", "file": "design.rda", "class": [ "numeric" ], "fields": [], "table": false, "tojson": true }, { "name": "exp.arr", "title": "Normalized Expression Array", "object": "exp.arr", "file": "exp.arr.rda", "class": [ "matrix", "array" ], "fields": [ "col1", "col2", "col3", "col4", "col5", "col6", "col7", "col8", "col9", "col10", "col11", "col12", "col13", "col14", "col15", "col16" ], "rows": 6384, "table": true, "tojson": true } ], "_help": [ { "page": "design", "title": "Experimental design", "topics": [ "design" ] }, { "page": "exp.arr", "title": "Normalized Expression Array", "topics": [ "exp.arr" ] }, { "page": "fdrgui", "title": "fdr.gui", "topics": [ "fdr.gui" ] }, { "page": "fdrma", "title": "fdr.ma", "topics": [ "fdr.ma" ] } ], "_rundeps": [], "_vignettes": [ { "source": "fdrame.Rnw", "filename": "fdrame.pdf", "title": "Annotation Overview", "engine": "utils::Sweave", "headings": [], "created": "2013-11-01 19:54:36", "modified": "2013-11-01 19:54:36", "commits": 1 } ], "_score": 3.3010299956639813, "_indexed": true, "_nocasepkg": "fdrame", "_universes": [ "bioc" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.85.0", "date": "2026-07-03T18:44:48.000Z", "distro": "resolute", "arch": "aarch64", "commit": "ec88f73bd3a8b589f1eaa5a53346734b881263c6", "fileid": "https://r2.ropensci.org/66640216d7649a5a791e81341e507687df11042eb4fb85e8d189d178d5214679", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28678002145" }, { "r": "4.7.0", "os": "linux", "version": "1.85.0", "date": "2026-07-03T18:44:47.000Z", "distro": "resolute", "arch": "x86_64", "commit": "ec88f73bd3a8b589f1eaa5a53346734b881263c6", "fileid": "https://r2.ropensci.org/43f78b1b9efae75370a3152bc7c9e91d2da64ba6fac0833512d7974ef7f8a976", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28678002145" }, { "r": "4.6.1", "os": "linux", "version": "1.85.0", "date": "2026-07-03T18:46:19.000Z", "distro": "resolute", "arch": "aarch64", "commit": "ec88f73bd3a8b589f1eaa5a53346734b881263c6", "fileid": "https://r2.ropensci.org/fc9473ff0a577c11bd671988e1d61406e5beb5af2a76e3b7c6423c8b216472a6", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28678002145" }, { "r": "4.6.1", "os": "linux", "version": "1.85.0", "date": "2026-07-03T18:45:14.000Z", "distro": "resolute", "arch": "x86_64", "commit": "ec88f73bd3a8b589f1eaa5a53346734b881263c6", "fileid": "https://r2.ropensci.org/99086af785e928b993e2c9884ece018a2a60a980823f3325bc0346f58ab12f10", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28678002145" }, { "r": "4.5.3", "os": "mac", "version": "1.85.0", "date": "2026-07-03T18:43:56.000Z", "arch": "aarch64", "commit": "ec88f73bd3a8b589f1eaa5a53346734b881263c6", "fileid": "https://r2.ropensci.org/cfddff977c13980ae36d6eaef584c8da02e9d4bbdf53fac844404aee7ba0a66e", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28678002145" }, { "r": "4.5.3", "os": "mac", "version": "1.85.0", "date": "2026-07-03T18:44:50.000Z", "arch": "x86_64", "commit": "ec88f73bd3a8b589f1eaa5a53346734b881263c6", "fileid": "https://r2.ropensci.org/e0878f202b84fca8e188ab80a4b3374baabce75a45478f5caefb9dbe7fe046d5", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28678002145" }, { "r": "4.6.1", "os": "mac", "version": "1.85.0", "date": "2026-07-03T18:44:05.000Z", "arch": "aarch64", "commit": "ec88f73bd3a8b589f1eaa5a53346734b881263c6", "fileid": "https://r2.ropensci.org/841fdf6ca329e6ae0a15bfdccc05e1b36f7213bb7b52b3b067564fe6ed2ea933", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28678002145" }, { "r": "4.6.1", "os": "mac", "version": "1.85.0", "date": "2026-07-03T18:45:20.000Z", "arch": "x86_64", "commit": "ec88f73bd3a8b589f1eaa5a53346734b881263c6", "fileid": "https://r2.ropensci.org/3acd64f058e925aa645f6e75b37a49d3c1649a42f30c92fdf6feceb3af35749d", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28678002145" }, { "r": "4.6.0", "os": "wasm", "version": "1.85.0", "date": "2026-07-03T18:44:13.000Z", "arch": "emscripten", "commit": "ec88f73bd3a8b589f1eaa5a53346734b881263c6", "fileid": "https://r2.ropensci.org/a3e00ab5a5b577045879266eda39398873a5a850f610131ffc7c12d1c4b7410c", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28678002145" }, { "r": "4.7.0", "os": "win", "version": "1.85.0", "date": "2026-07-03T18:43:38.000Z", "arch": "x86_64", "commit": "ec88f73bd3a8b589f1eaa5a53346734b881263c6", "fileid": "https://r2.ropensci.org/4dd424b4fbec558ad5ddc6ba0da96b8a729e65dd9c3e109d32fe1d60c3cc7cc8", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28678002145" }, { "r": "4.5.3", "os": "win", "version": "1.85.0", "date": "2026-07-03T18:43:38.000Z", "arch": "x86_64", "commit": "ec88f73bd3a8b589f1eaa5a53346734b881263c6", "fileid": "https://r2.ropensci.org/3215262045685b7a9194f272fba08b60478cfda5ae324eb5f0b8c75f17c4e23b", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28678002145" }, { "r": "4.6.1", "os": "win", "version": "1.85.0", "date": "2026-07-03T18:43:50.000Z", "arch": "x86_64", "commit": "ec88f73bd3a8b589f1eaa5a53346734b881263c6", "fileid": "https://r2.ropensci.org/2183d1e9a8944027ca393e91579e723c0e1e9c8b163d0f065131b9be8f9068d7", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28678002145" } ] }