{ "_id": "6a103cc8acfb0bcc41c9c081", "Package": "factDesign", "Title": "Factorial designed microarray experiment analysis", "Version": "1.89.0", "Author": "Denise Scholtens", "Description": "This package provides a set of tools for analyzing data\nfrom a factorial designed microarray experiment, or any\nmicroarray experiment for which a linear model is appropriate.\nThe functions can be used to evaluate tests of contrast of\nbiological interest and perform single outlier detection.", "Maintainer": "Denise Scholtens ", "License": "LGPL", "biocViews": "Microarray, DifferentialExpression", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:30:17 UTC", "RemoteUrl": "https://github.com/bioc/factDesign", "RemoteRef": "HEAD", "RemoteSha": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-11 10:05:36 UTC", "User": "root" }, "MD5sum": "0fe4ed1444777f6b14e1349207d63100", "_user": "bioc", "_type": "src", "_file": "factDesign_1.89.0.tar.gz", "_fileid": "64dd8a8fb4bcfaeea86e78228edb9ef2d6fe953a91c55bb2f575301acf9c3a9a", "_filesize": 325380, "_sha256": "64dd8a8fb4bcfaeea86e78228edb9ef2d6fe953a91c55bb2f575301acf9c3a9a", "_created": "2026-05-11T10:05:36.000Z", "_published": "2026-05-22T11:23:52.201Z", "_jobs": [ { "job": 77369822649, "time": 137, "config": "bioc-checks", "r": "4.6.0", "check": "ERROR", "artifact": "6915686518" }, { "job": 77369822207, "time": 179, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "6915697555" }, { "job": 77369822758, "time": 151, "config": "linux-release-x86_64", "r": "4.6.0", "check": "NOTE", "artifact": "6915688517" }, { "job": 77369822744, "time": 94, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "6915690415" }, { "job": 77369822459, "time": 110, "config": "macos-release-arm64", "r": "4.6.0", "check": "NOTE", "artifact": "6915695318" }, { "job": 77369821424, "time": 183, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "6915641469" }, { "job": 77369821885, "time": 102, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7159315203" }, { "job": 77369822745, "time": 79, "config": "windows-devel", "r": "4.7.0", "check": "NOTE", "artifact": "6915667222" }, { "job": 77369822937, "time": 69, "config": "windows-oldrel", "r": "4.5.3", "check": "NOTE", "artifact": "6915663968" }, { "job": 77369822302, "time": 74, "config": "windows-release", "r": "4.6.0", "check": "NOTE", "artifact": "6915665614" } ], "_bioccheck": { "error": 1, "warning": 2, "note": 9 }, "_buildurl": "https://github.com/r-universe/bioc/actions/runs/25663509152", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/bioc/factDesign", "_commit": { "id": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777379417 }, "_maintainer": { "name": "Denise Scholtens", "email": "dscholtens@northwestern.edu", "login": "dscholtens", "uuid": 68240228 }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "Biobase", "version": ">= 2.5.5", "role": "Depends" }, { "package": "stats", "role": "Imports" }, { "package": "affy", "role": "Suggests" }, { "package": "genefilter", "role": "Suggests" }, { "package": "multtest", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.89.0", "bioc": "3.24" }, { "branch": "release", "version": "1.88.0", "bioc": "3.23" } ], "_topics": [ "microarray", "differentialexpression" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 411, "source": "https://www.bioconductor.org/packages/stats/bioc/factDesign" }, "_searchresults": 6, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/factDesign.html", "manual.pdf" ], "_realowner": "bioc", "_cranurl": false, "_exports": [ "contrastTest", "findFC", "kRepsOverA", "madOutPair", "outlierPair", "par2lambda" ], "_datasets": [ { "name": "estrogen", "title": "Microarray Data from an Experiment on Breast Cancer Cells", "object": "estrogen", "file": "estrogen.rda", "class": [ "ExpressionSet" ], "fields": [], "table": false, "tojson": false } ], "_help": [ { "page": "contrasts", "title": "Construct appropriate lambda matrix and test linear contrasts of the parameter estimates from a linear model.", "topics": [ "contrastTest", "par2lambda" ] }, { "page": "estrogen", "title": "Microarray Data from an Experiment on Breast Cancer Cells", "topics": [ "estrogen" ] }, { "page": "findFC", "title": "A function to find the fold change between two experimental conditions in a factorial experiment based on the linear model parameter estimates.", "topics": [ "findFC" ] }, { "page": "kRepsOverA", "title": "A filter function for at least k sets of replicates in a factorial experiment to have mean larger than A.", "topics": [ "kRepsOverA" ] }, { "page": "outliers", "title": "Detect single outliers in experimental designs with only two replicates per treatment condition.", "topics": [ "madOutPair", "outlierPair" ] } ], "_rundeps": [ "Biobase", "BiocGenerics", "generics" ], "_vignettes": [ { "source": "factDesign.Rnw", "filename": "factDesign.pdf", "title": "factDesign", "engine": "utils::Sweave", "headings": [], "created": "2013-11-01 19:49:48", "modified": "2013-11-01 19:49:48", "commits": 1 } ], "_score": 3.3010299956639813, "_indexed": true, "_nocasepkg": "factdesign", "_universes": [ "bioc", "dscholtens" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.89.0", "date": "2026-05-11T10:08:39.000Z", "distro": "noble", "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90", "fileid": "381bfdeec3f44710b6505b7244f619c2bc91b7356a701d6dc4107394153016a1", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663509152" }, { "r": "4.6.0", "os": "linux", "version": "1.89.0", "date": "2026-05-11T10:08:10.000Z", "distro": "noble", "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90", "fileid": "a4c8d4b11de55fd6e0846afffe0d51a29a7d5754fcf0ad074b20b2b42ee9b37d", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663509152" }, { "r": "4.5.3", "os": "mac", "version": "1.89.0", "date": "2026-05-11T10:07:59.000Z", "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90", "fileid": "069189e4428f15e89669aa1f2c922957225945ad007ba4702af79832a179d7b6", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663509152" }, { "r": "4.6.0", "os": "mac", "version": "1.89.0", "date": "2026-05-11T10:08:28.000Z", "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90", "fileid": "7a7b502b0aa1b0235bc61ad2feca0a8567854e2bb9261ce0ecaed29083219b68", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663509152" }, { "r": "4.7.0", "os": "win", "version": "1.89.0", "date": "2026-05-11T10:06:55.000Z", "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90", "fileid": "b4aa80c78fe8fc4e79d2ba8446e70809eebd8a387c6e70e780438d32e7501f10", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663509152" }, { "r": "4.5.3", "os": "win", "version": "1.89.0", "date": "2026-05-11T10:06:46.000Z", "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90", "fileid": "b6dd625e26ba38711e71486a9e399ac3136794a9941d6402ba232402f979ba16", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663509152" }, { "r": "4.6.0", "os": "win", "version": "1.89.0", "date": "2026-05-11T10:06:52.000Z", "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90", "fileid": "b15567aefb728177937dd0f7e5af7b3a7c3b0359fb917e4d4cf8c8c5fbb58eeb", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663509152" }, { "r": "4.6.0", "os": "wasm", "version": "1.89.0", "date": "2026-05-22T11:23:28.000Z", "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90", "fileid": "27f43789ad1336d4120f999d233935f3b24d554bc40dce2424163567966b1cf5", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663509152" } ] }