{ "_id": "6a49435d18cdde069385eb25", "Package": "Mulcom", "Type": "Package", "Title": "Calculates Mulcom test", "Version": "1.63.0", "Date": "2011-10-08", "Author": "Claudio Isella", "Maintainer": "Claudio Isella ", "Description": "Identification of differentially expressed genes and false\ndiscovery rate (FDR) calculation by Multiple Comparison test.", "License": "GPL-2", "LazyLoad": "yes", "Packaged": { "Date": "2026-07-04 12:32:17 UTC", "User": "root" }, "biocViews": "StatisticalMethod, MultipleComparison, Microarray,\nDifferentialExpression, GeneExpression", "git_url": "https://git.bioconductor.org/packages/Mulcom", "git_branch": "RELEASE_3_8", "git_last_commit": "4f49fd6", "git_last_commit_date": "2018-10-30", "NeedsCompilation": "yes", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:34:49 UTC", "RemoteUrl": "https://github.com/bioc/Mulcom", "RemoteRef": "HEAD", "RemoteSha": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02", "_user": "bioc", "_type": "src", "_file": "Mulcom_1.63.0.tar.gz", "_fileid": "https://r2.ropensci.org/566ec5916c40f42f441e55174138599f43676fb729418d48fcd3ba2e4d48e9ff", "_filesize": 1273481, "_sha256": "566ec5916c40f42f441e55174138599f43676fb729418d48fcd3ba2e4d48e9ff", "_expires": "2026-10-12T17:31:06.000Z", "_created": "2026-07-04T12:32:17.000Z", "_published": "2026-07-04T17:31:09.021Z", "_bioccheck": { "error": 2, "warning": 7, "note": 9 }, "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/bioc/actions/runs/28706239381", "_status": "success", "_upstream": "https://github.com/bioc/Mulcom", "_commit": { "id": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777379689 }, "_maintainer": { "name": "Claudio Isella", "email": "claudio.isella@ircc.it" }, "_distro": "resolute", "_jobs": [ { "job": 85152425117, "time": 145, "config": "bioc-checks", "r": "4.6.1", "check": "ERROR", "artifact": "8081727816" }, { "job": 85152424931, "time": 151, "config": "linux-devel-arm64", "r": "4.7.0", "check": "WARNING", "artifact": "8081728963" }, { "job": 85152424908, "time": 198, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "8081735559" }, { "job": 85152425197, "time": 147, "config": "linux-release-arm64", "r": "4.6.1", "check": "WARNING", "artifact": "8081728411" }, { "job": 85152425179, "time": 182, "config": "linux-release-x86_64", "r": "4.6.1", "check": "WARNING", "artifact": "8081733031" }, { "job": 85152425242, "time": 118, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "WARNING", "artifact": "8081723771" }, { "job": 85152425063, "time": 341, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "WARNING", "artifact": "8081755155" }, { "job": 85152425154, "time": 99, "config": "macos-release-arm64", "r": "4.6.1", "check": "WARNING", "artifact": "8081720891" }, { "job": 85152424872, "time": 201, "config": "macos-release-x86_64", "r": "4.6.1", "check": "WARNING", "artifact": "8081736032" }, { "job": 85152424735, "time": 151, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "8081706923" }, { "job": 85152425065, "time": 123, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "8081724524" }, { "job": 85152424914, "time": 111, "config": "windows-devel", "r": "4.7.0", "check": "WARNING", "artifact": "8081722649" }, { "job": 85152424978, "time": 117, "config": "windows-oldrel", "r": "4.5.3", "check": "WARNING", "artifact": "8081723507" }, { "job": 85152425050, "time": 128, "config": "windows-release", "r": "4.6.1", "check": "WARNING", "artifact": "8081725165" } ], "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.10", "role": "Depends" }, { "package": "Biobase", "role": "Depends" }, { "package": "graphics", "role": "Imports" }, { "package": "grDevices", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "methods", "role": "Imports" }, { "package": "fields", "role": "Imports" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.63.0", "bioc": "3.24" }, { "branch": "release", "version": "1.62.0", "bioc": "3.23" } ], "_topics": [ "statisticalmethod", "multiplecomparison", "microarray", "differentialexpression", "geneexpression", "cpp" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "followers": 445, "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_mentions": 1, "_searchresults": 0, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/Mulcom.html", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_realowner": "bioc", "_cranurl": false, "_exports": [ "mulCalc", "mulCAND", "mulDELTA", "mulDiff", "mulFSG", "mulIndex", "mulInt", "mulOpt", "mulOptPars", "mulOptPlot", "mulParOpt", "mulPerm", "mulScores" ], "_datasets": [ { "name": "Affy", "title": "Affy Dataset", "object": "benchVign", "file": "benchVign.rda", "class": [ "ExpressionSet" ], "fields": [], "table": false, "tojson": false }, { "name": "AffyIlmn", "title": "cross mapping table", "object": "benchVign", "file": "benchVign.rda", "class": [ "data.frame" ], "fields": [ "Symbol", "Probe.x", "Description.x", "Gene.x", "Probe.y", "Description.y", "Gene.y" ], "rows": 11298, "table": true, "tojson": true }, { "name": "limmaAffySymbols", "title": "significant gene list with limma in Affymetrix", "object": "others", "file": "others.rda", "class": [ "factor" ], "fields": [], "table": false, "tojson": true }, { "name": "limmaIlmnSymbols", "title": "significant gene list with limma in Illumina", "object": "others", "file": "others.rda", "class": [ "factor" ], "fields": [], "table": false, "tojson": true }, { "name": "mulcomGeneListIlmn", "title": "significant gene list with limma in Illumina", "object": "others", "file": "others.rda", "class": [ "character" ], "fields": [], "table": false, "tojson": true }, { "name": "samAffySymbols", "title": "significant gene list with SAM in Affymetrix", "object": "others", "file": "others.rda", "class": [ "factor" ], "fields": [], "table": false, "tojson": true }, { "name": "samIlmnSymbols", "title": "significant gene list with SAM in Illumina", "object": "others", "file": "others.rda", "class": [ "factor" ], "fields": [], "table": false, "tojson": true } ], "_help": [ { "page": "Affy", "title": "Affy Dataset", "topics": [ "Affy" ] }, { "page": "AffyIlmn", "title": "cross mapping table", "topics": [ "AffyIlmn" ] }, { "page": "harmonicMean", "title": "MulCom Harmonic Mean", "topics": [ "harmonicMean" ] }, { "page": "Illumina", "title": "Illumina Dataset", "topics": [ "Illumina" ] }, { "page": "Ilmn", "title": "Ilmn Dataset", "topics": [ "Ilmn" ] }, { "page": "limmaAffySymbols", "title": "significant gene list with limma in Affymetrix", "topics": [ "limmaAffySymbols" ] }, { "page": "limmaIlmnSymbols", "title": "significant gene list with limma in Illumina", "topics": [ "limmaIlmnSymbols" ] }, { "page": "mulCalc", "title": "MulCom Calculation", "topics": [ "mulCalc" ] }, { "page": "mulCAND", "title": "Identify the Mulcom candidate feature selection", "topics": [ "mulCAND" ] }, { "page": "MULCOM_P", "title": "Class MulCom Permutation", "topics": [ "class:MULCOM_P", "MULCOM_P", "MULCOM_P-class" ] }, { "page": "MULCOM-class", "title": "Class MulCom", "topics": [ "class:MULCOM", "MULCOM", "MULCOM-class" ] }, { "page": "mulcomGeneListIlmn", "title": "significant gene list with limma in Illumina", "topics": [ "mulcomGeneListIlmn" ] }, { "page": "mulDELTA", "title": "MulCom Delta", "topics": [ "mulDELTA" ] }, { "page": "mulDiff", "title": "MulCom Test Differential analysis", "topics": [ "mulDiff" ] }, { "page": "mulFSG", "title": "MulCom False Significant Genes", "topics": [ "mulFSG" ] }, { "page": "mulIndex", "title": "Mulcom Index for Monte Carlo Simlation", "topics": [ "mulIndex" ] }, { "page": "mulInt", "title": "generates a consensus matrix from list of genes", "topics": [ "mulInt" ] }, { "page": "mulMSE", "title": "MulCom Mean Square Error", "topics": [ "mulMSE" ] }, { "page": "mulOpt", "title": "MulCom optimization", "topics": [ "mulOpt" ] }, { "page": "mulOptPars", "title": "MulCom Parameter Optimization", "topics": [ "mulOptPars" ] }, { "page": "mulOptPlot", "title": "MulCom optimization Plot", "topics": [ "mulOptPlot" ] }, { "page": "mulParOpt", "title": "MulCom Parameters Optimization", "topics": [ "mulParOpt" ] }, { "page": "mulPerm", "title": "MulCom Permutation", "topics": [ "mulPerm" ] }, { "page": "mulPermC", "title": "MulCom Permutation", "topics": [ "mulPermC" ] }, { "page": "mulScores", "title": "MulCom Score Calculation", "topics": [ "mulScores" ] }, { "page": "mulSSE", "title": "MulCom Sum of Square Error", "topics": [ "mulSSE" ] }, { "page": "samAffySymbols", "title": "significant gene list with SAM in Affymetrix", "topics": [ "samAffySymbols" ] }, { "page": "samIlmnSymbols", "title": "significant gene list with SAM in Illumina", "topics": [ "samIlmnSymbols" ] }, { "page": "samOptPars", "title": "sam Parameter Optimization", "topics": [ "samOptPars" ] } ], "_readme": "https://github.com/bioc/Mulcom/raw/HEAD/README.md", "_rundeps": [ "Biobase", "BiocGenerics", "dotCall64", "fields", "generics", "maps", "RColorBrewer", "Rcpp", "spam", "viridisLite" ], "_sysdeps": [ { "shlib": "libstdc++", "package": "libstdc++6", "source": "gcc", "version": "16-20260322-1ubuntu1", "name": "c++", "homepage": "http://gcc.gnu.org/", "description": "GNU Standard C++ Library v3" } ], "_score": 3, "_indexed": true, "_nocasepkg": "mulcom", "_universes": [ "bioc" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.63.0", "date": "2026-07-04T12:34:35.000Z", "distro": "resolute", "arch": "aarch64", "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02", "fileid": "https://r2.ropensci.org/27bd5756c9ef03b1962a1fed151fef08264e29ba0f642d73add65512d7e10395", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28706239381" }, { "r": "4.7.0", "os": "linux", "version": "1.63.0", "date": "2026-07-04T12:35:16.000Z", "distro": "resolute", "arch": "x86_64", "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02", "fileid": "https://r2.ropensci.org/9cb2be79ffd265703ce6411d7ebdbb6a06f7729ca80f02905f9c454c6f3daf7d", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28706239381" }, { "r": "4.6.1", "os": "linux", "version": "1.63.0", "date": "2026-07-04T12:34:32.000Z", "distro": "resolute", "arch": "aarch64", "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02", "fileid": "https://r2.ropensci.org/ef61fd86cb6d81f129465095465993955d5f09787fcf4a721d45c3c88875e469", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28706239381" }, { "r": "4.6.1", "os": "linux", "version": "1.63.0", "date": "2026-07-04T12:35:00.000Z", "distro": "resolute", "arch": "x86_64", "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02", "fileid": "https://r2.ropensci.org/1bc22d51fb6b4ace9989ea0a2afe06176f1fa992450a501418ddb259ab824f14", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28706239381" }, { "r": "4.5.3", "os": "mac", "version": "1.63.0", "date": "2026-07-04T12:33:58.000Z", "arch": "aarch64", "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02", "fileid": "https://r2.ropensci.org/add672866e56a7b30d3a391d0c470623c1195dc491045610063d5898a6d00988", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28706239381" }, { "r": "4.5.3", "os": "mac", "version": "1.63.0", "date": "2026-07-04T12:36:42.000Z", "arch": "x86_64", "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02", "fileid": "https://r2.ropensci.org/0fc395a42cf23fb063d9cbe27e7a908f38e003c6344cd665fc4fb22b1726f479", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28706239381" }, { "r": "4.6.1", "os": "mac", "version": "1.63.0", "date": "2026-07-04T12:33:41.000Z", "arch": "aarch64", "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02", "fileid": "https://r2.ropensci.org/331b6fdaad2a6a88d309d97dc41654731b508ecbd81e18d1a04c257fd3e23351", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28706239381" }, { "r": "4.6.1", "os": "mac", "version": "1.63.0", "date": "2026-07-04T12:34:49.000Z", "arch": "x86_64", "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02", "fileid": "https://r2.ropensci.org/553cb4d07a13901da09a178b294f781713204256bcc213a375e7c502d3c613b3", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28706239381" }, { "r": "4.6.0", "os": "wasm", "version": "1.63.0", "date": "2026-07-04T12:34:35.000Z", "arch": "emscripten", "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02", "fileid": "https://r2.ropensci.org/137bd825cf2013b5b463d3154185e3eee16a1cfa2ce9f982c9425665881358e4", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28706239381" }, { "r": "4.7.0", "os": "win", "version": "1.63.0", "date": "2026-07-04T12:33:26.000Z", "arch": "x86_64", "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02", "fileid": "https://r2.ropensci.org/c7f89d61cc076519d4e7d60c450aec4169fa653d0be7bf7946bea6007b1ad4c7", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28706239381" }, { "r": "4.5.3", "os": "win", "version": "1.63.0", "date": "2026-07-04T12:33:28.000Z", "arch": "x86_64", "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02", "fileid": "https://r2.ropensci.org/2f15c7baeac198168f2a798b8770b9e50465fe77920b0a2e1496f9b1737bd69d", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28706239381" }, { "r": "4.6.1", "os": "win", "version": "1.63.0", "date": "2026-07-04T12:33:38.000Z", "arch": "x86_64", "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02", "fileid": "https://r2.ropensci.org/afdfc821951c38db89cf8a148ce0465a361a12f7941b9d526df19c12dbde839b", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28706239381" } ] }