{
  "_id": "6a1fddacb401979e7343877d",
  "Package": "ResidualMatrix",
  "Version": "1.23.0",
  "Date": "2025-04-08",
  "Title": "Creating a DelayedMatrix of Regression Residuals",
  "Authors@R": "person(\"Aaron\", \"Lun\", role=c(\"aut\", \"cre\", \"cph\"),\nemail=\"infinite.monkeys.with.keyboards@gmail.com\")",
  "biocViews": "Software, DataRepresentation, Regression, BatchEffect,\nExperimentalDesign",
  "Description": "Provides delayed computation of a matrix of residuals\nafter fitting a linear model to each column of an input matrix.\nAlso supports partial computation of residuals where selected\nfactors are to be preserved in the output matrix. Implements a\nnumber of efficient methods for operating on the delayed matrix\nof residuals, most notably matrix multiplication and\ncalculation of row/column sums or means.",
  "License": "GPL-3",
  "VignetteBuilder": "knitr",
  "RoxygenNote": "7.3.1",
  "BugReports": "https://github.com/LTLA/ResidualMatrix/issues",
  "URL": "https://github.com/LTLA/ResidualMatrix",
  "Config/pak/sysreqs": "zlib1g-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:53:38 UTC",
  "RemoteUrl": "https://github.com/bioc/ResidualMatrix",
  "RemoteRef": "HEAD",
  "RemoteSha": "1999e8c5bde9d50d8b6cc740ca22d1eec9f16594",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-06-03 07:47:43 UTC",
    "User": "root"
  },
  "Author": "Aaron Lun [aut, cre, cph]",
  "Maintainer": "Aaron Lun <infinite.monkeys.with.keyboards@gmail.com>",
  "MD5sum": "8aae991dbe9a478a090674c5c1b4f152",
  "_user": "bioc",
  "_type": "src",
  "_file": "ResidualMatrix_1.23.0.tar.gz",
  "_fileid": "928debf70366e7e6017d37030a832d5f8d6f7d65127b90457cfeff420b6c3c25",
  "_filesize": 183719,
  "_sha256": "928debf70366e7e6017d37030a832d5f8d6f7d65127b90457cfeff420b6c3c25",
  "_created": "2026-06-03T07:47:43.000Z",
  "_published": "2026-06-03T07:54:20.045Z",
  "_jobs": [
    {
      "job": 79246451766,
      "time": 146,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7378690391"
    },
    {
      "job": 79246451784,
      "time": 348,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7378755920"
    },
    {
      "job": 79246451746,
      "time": 313,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7378744969"
    },
    {
      "job": 79246451778,
      "time": 143,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7378688838"
    },
    {
      "job": 79246451824,
      "time": 216,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7378713378"
    },
    {
      "job": 79245832088,
      "time": 236,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7378639325"
    },
    {
      "job": 79246451891,
      "time": 135,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7378686307"
    },
    {
      "job": 79246451780,
      "time": 222,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7378715823"
    },
    {
      "job": 79246451768,
      "time": 235,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7378721156"
    },
    {
      "job": 79246451812,
      "time": 207,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7378710685"
    }
  ],
  "_bioccheck": {
    "error": 0,
    "warning": 1,
    "note": 6
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26870924644",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/ResidualMatrix",
  "_commit": {
    "id": "1999e8c5bde9d50d8b6cc740ca22d1eec9f16594",
    "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": 1777380818
  },
  "_maintainer": {
    "name": "Aaron Lun",
    "email": "infinite.monkeys.with.keyboards@gmail.com",
    "login": "ltla",
    "twitter": "@realAaronLun",
    "description": "(ノಠ益ಠ)ノ彡┻━┻\n",
    "uuid": 8166669
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "Matrix",
      "role": "Imports"
    },
    {
      "package": "S4Vectors",
      "role": "Imports"
    },
    {
      "package": "DelayedArray",
      "role": "Imports"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "BiocSingular",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 11,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.23.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.22.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "software",
    "datarepresentation",
    "regression",
    "batcheffect",
    "experimentaldesign"
  ],
  "_stars": 1,
  "_contributors": [
    {
      "user": "ltla",
      "count": 19,
      "uuid": 8166669
    },
    {
      "user": "jwokaty",
      "count": 14,
      "uuid": 1744257
    },
    {
      "user": "nturaga",
      "count": 8,
      "uuid": 2746443
    }
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 6816,
    "source": "https://www.bioconductor.org/packages/stats/bioc/ResidualMatrix"
  },
  "_devurl": "https://github.com/ltla/residualmatrix",
  "_searchresults": 11,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "extra/ResidualMatrix.html",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/ltla/residualmatrix",
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "colMeans",
    "colSums",
    "DelayedArray",
    "extract_array",
    "ResidualMatrix",
    "ResidualMatrixSeed",
    "rowMeans",
    "rowSums",
    "show",
    "t"
  ],
  "_help": [
    {
      "page": "ResidualMatrix-package",
      "title": "The 'ResidualMatrix' package",
      "topics": [
        "ResidualMatrix-package"
      ]
    },
    {
      "page": "ResidualMatrix-class",
      "title": "The ResidualMatrix class",
      "topics": [
        "%*%,ANY,ResidualMatrix-method",
        "%*%,ResidualMatrix,ANY-method",
        "%*%,ResidualMatrix,ResidualMatrix-method",
        "colMeans,ResidualMatrix-method",
        "colSums,ResidualMatrix-method",
        "crossprod,ANY,ResidualMatrix-method",
        "crossprod,ResidualMatrix,ANY-method",
        "crossprod,ResidualMatrix,missing-method",
        "crossprod,ResidualMatrix,ResidualMatrix-method",
        "dimnames<-,ResidualMatrix,ANY-method",
        "ResidualMatrix",
        "ResidualMatrix-class",
        "rowMeans,ResidualMatrix-method",
        "rowSums,ResidualMatrix-method",
        "t,ResidualMatrix-method",
        "tcrossprod,ANY,ResidualMatrix-method",
        "tcrossprod,ResidualMatrix,ANY-method",
        "tcrossprod,ResidualMatrix,missing-method",
        "tcrossprod,ResidualMatrix,ResidualMatrix-method",
        "[,ResidualMatrix,ANY,ANY,ANY-method"
      ]
    },
    {
      "page": "ResidualMatrixSeed-class",
      "title": "The ResidualMatrixSeed class",
      "topics": [
        "DelayedArray,ResidualMatrixSeed-method",
        "dim,ResidualMatrixSeed-method",
        "dimnames,ResidualMatrixSeed-method",
        "extract_array,ResidualMatrixSeed-method",
        "ResidualMatrixSeed",
        "ResidualMatrixSeed-class",
        "show,ResidualMatrixSeed-method"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/ResidualMatrix/raw/HEAD/README.md",
  "_rundeps": [
    "abind",
    "BiocGenerics",
    "DelayedArray",
    "generics",
    "IRanges",
    "lattice",
    "Matrix",
    "MatrixGenerics",
    "matrixStats",
    "S4Arrays",
    "S4Vectors",
    "SparseArray",
    "XVector"
  ],
  "_vignettes": [
    {
      "source": "ResidualMatrix.Rmd",
      "filename": "ResidualMatrix.html",
      "title": "Using the ResidualMatrix class",
      "author": "Aaron Lun",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Overview",
        "Using the ResidualMatrix",
        "Retaining certain factors",
        "Restricting observations",
        "Session information"
      ],
      "created": "2020-08-31 00:40:47",
      "modified": "2024-06-21 17:40:06",
      "commits": 6
    }
  ],
  "_score": 6.694466202458737,
  "_indexed": true,
  "_nocasepkg": "residualmatrix",
  "_universes": [
    "bioc",
    "ltla"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.23.0",
      "date": "2026-06-03T07:52:05.000Z",
      "distro": "noble",
      "commit": "1999e8c5bde9d50d8b6cc740ca22d1eec9f16594",
      "fileid": "27bca3a4f552f85fd0f7fad20369a446f6419698c7679191db5c4fb9ab74ab62",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26870924644"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.23.0",
      "date": "2026-06-03T07:51:19.000Z",
      "distro": "noble",
      "commit": "1999e8c5bde9d50d8b6cc740ca22d1eec9f16594",
      "fileid": "281e848075729233d7cbdaac35c3fbf5c1748ed166f7cf9c02dbdd13b0a8cd19",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26870924644"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.23.0",
      "date": "2026-06-03T07:49:23.000Z",
      "commit": "1999e8c5bde9d50d8b6cc740ca22d1eec9f16594",
      "fileid": "d1cfac79f05c7f924470eac4496f45e33a4c4c09a038d185d721cd5abca321d5",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26870924644"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.23.0",
      "date": "2026-06-03T07:49:55.000Z",
      "commit": "1999e8c5bde9d50d8b6cc740ca22d1eec9f16594",
      "fileid": "c8e6e74eed7c2afba7caa7ff0f2099c350e7b1635a4b20202f3c20d90b58f2a8",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26870924644"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.23.0",
      "date": "2026-06-03T07:50:28.000Z",
      "commit": "1999e8c5bde9d50d8b6cc740ca22d1eec9f16594",
      "fileid": "fa78ce720d5be73c8893bd1c4847b7660ea4ad1cccce86a7909665b6c5e7e125",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26870924644"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.23.0",
      "date": "2026-06-03T07:49:34.000Z",
      "commit": "1999e8c5bde9d50d8b6cc740ca22d1eec9f16594",
      "fileid": "b8713887a006e64ea17b0c5a780a80ce612aa2e7f46944581eba9e7d27a9a118",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26870924644"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.23.0",
      "date": "2026-06-03T07:49:43.000Z",
      "commit": "1999e8c5bde9d50d8b6cc740ca22d1eec9f16594",
      "fileid": "9b361e229e9f4faf1e73807f7f68c301902351b8f5f79c57a3721b7fecc6f448",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26870924644"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.23.0",
      "date": "2026-06-03T07:49:23.000Z",
      "commit": "1999e8c5bde9d50d8b6cc740ca22d1eec9f16594",
      "fileid": "547fe79cc7a0452b65bc725acb766f6dc1d3ea480efa8b0d86c513a2427fffea",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26870924644"
    }
  ]
}