{
  "_id": "6acf4ac3d9de2f3f33fca571",
  "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 <dscholtens@northwestern.edu>",
  "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": "2026-10-14 08:33:05 UTC",
    "User": "root"
  },
  "_user": "bioc",
  "_type": "src",
  "_file": "factDesign_1.89.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/7a5ae8471ae58f9910a97126cb8100868a0951ff38491560419091b09a56e8ab",
  "_filesize": 324921,
  "_sha256": "7a5ae8471ae58f9910a97126cb8100868a0951ff38491560419091b09a56e8ab",
  "_expires": "2027-01-22T09:26:25.000Z",
  "_created": "2026-10-14T08:33:05.000Z",
  "_published": "2026-10-14T09:26:27.178Z",
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/38535381735",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_bioccheck": {
    "error": 1,
    "warning": 2,
    "note": 9
  },
  "_upstream": "https://github.com/bioc/factDesign",
  "_commit": {
    "id": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90",
    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "committer": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "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",
    "description": "Professor and Chief, Division of Biostatistics\nDirector, NUDACC\nNorthwestern University Feinberg School of Medicine",
    "uuid": 68240228
  },
  "_distro": "resolute",
  "_jobs": [
    {
      "job": 115758840311,
      "time": 171,
      "config": "bioc-checks",
      "r": "4.6.1",
      "check": "ERROR",
      "artifact": "11879529282"
    },
    {
      "job": 115758840373,
      "time": 163,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "11880059019"
    },
    {
      "job": 115758840353,
      "time": 255,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "NOTE",
      "artifact": "11879229845"
    },
    {
      "job": 115758840335,
      "time": 112,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "11882114430"
    },
    {
      "job": 115758840401,
      "time": 113,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "NOTE",
      "artifact": "11883230401"
    },
    {
      "job": 115757030857,
      "time": 274,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11880415211"
    },
    {
      "job": 115758840408,
      "time": 91,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "11879054863"
    },
    {
      "job": 115758840411,
      "time": 82,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "11879894211"
    },
    {
      "job": 115758840443,
      "time": 56,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "11880201072"
    },
    {
      "job": 115758840594,
      "time": 72,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "NOTE",
      "artifact": "11879809458"
    }
  ],
  "_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",
      "repository": "bioc"
    },
    {
      "branch": "release",
      "version": "1.88.0",
      "bioc": "3.23",
      "repository": "bioc"
    }
  ],
  "_topics": [
    "microarray",
    "differentialexpression"
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 477,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 608,
    "source": "https://www.bioconductor.org/packages/stats/bioc/factDesign"
  },
  "_searchresults": 1,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/factDesign.html",
    "extra/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": "2026-10-14T08:36:13.000Z",
      "distro": "resolute",
      "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90",
      "fileid": "https://r2.ropensci.org/c756420c573766020c3a8be71dd5338715c1ff5b54c62649e5b597be964fb8c0",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38535381735"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.89.0",
      "date": "2026-10-14T08:37:46.000Z",
      "distro": "resolute",
      "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90",
      "fileid": "https://r2.ropensci.org/78b513ba173f4271f115f388778f1c4871d9d4f21479979bf8ec3d0f890fadcf",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38535381735"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.89.0",
      "date": "2026-10-14T09:25:43.000Z",
      "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90",
      "fileid": "https://r2.ropensci.org/8dc9db2c3b3948ef175f5b244f1114dd250a07e9f3a89f2f2f8c682e1f8a8b77",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38535381735"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "1.89.0",
      "date": "2026-10-14T09:25:51.000Z",
      "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90",
      "fileid": "https://r2.ropensci.org/37e9a1de8d3ded3355efb920e3cdcba951e19f8d98b09244fc9b144aa2347498",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38535381735"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.89.0",
      "date": "2026-10-14T08:35:13.000Z",
      "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90",
      "fileid": "https://r2.ropensci.org/49a5426269a812cf4402bbe50317fedca77709b3d828149822491e1f955c370b",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38535381735"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.89.0",
      "date": "2026-10-14T08:34:45.000Z",
      "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90",
      "fileid": "https://r2.ropensci.org/4b63531965c85a6889eb8633ee5e592342c196529579f4b2b69c4cecc01d819b",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38535381735"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.89.0",
      "date": "2026-10-14T08:34:26.000Z",
      "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90",
      "fileid": "https://r2.ropensci.org/add54b7cb9e56ac3752972ecca729865a1194c1c662ee9bdc06dd0ec0f11201f",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38535381735"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "1.89.0",
      "date": "2026-10-14T08:34:37.000Z",
      "commit": "a4d3c25cb9ee959747c1ace63a3acc57d6ab9f90",
      "fileid": "https://r2.ropensci.org/17bdb44961cbe2521634b91f72de45d96661e2e0667889c6c9aee149fb3dd906",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38535381735"
    }
  ]
}