{
  "_id": "6ae789b01e2c7b3a4f5307b1",
  "Package": "BumpyMatrix",
  "Version": "1.20.0",
  "Date": "2021-07-03",
  "Title": "Bumpy Matrix of Non-Scalar Objects",
  "Description": "Implements the BumpyMatrix class and several subclasses\nfor holding non-scalar objects in each entry of the matrix.\nThis is akin to a ragged array but the raggedness is in the\nthird dimension, much like a bumpy surface - hence the name. Of\nparticular interest is the BumpyDataFrameMatrix, where each\nentry is a Bioconductor data frame. This allows us to naturally\nrepresent multivariate data in a format that is compatible with\ntwo-dimensional containers like the SummarizedExperiment and\nMultiAssayExperiment objects.",
  "Authors@R": "c(\nperson(\"Aaron\", \"Lun\", role=c(\"aut\", \"cre\"), email=\"infinite.monkeys.with.keyboards@gmail.com\"),\nperson(\"Genentech, Inc.\", role=\"cph\")\n)",
  "License": "MIT + file LICENSE",
  "biocViews": "Software, Infrastructure, DataRepresentation",
  "VignetteBuilder": "knitr",
  "RoxygenNote": "7.1.1",
  "URL": "https://bioconductor.org/packages/BumpyMatrix",
  "BugReports": "https://github.com/LTLA/BumpyMatrix/issues",
  "Repository": "Bioconductor 3.23",
  "Date/Publication": "2026-04-28 12:54:43 UTC",
  "RemoteUrl": "https://github.com/bioc/BumpyMatrix",
  "RemoteRef": "RELEASE_3_23",
  "RemoteSha": "6533cb1ee20986df2e0fc376945c28412fdb34d6",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-11-01 17:20:14 UTC",
    "User": "root"
  },
  "Author": "Aaron Lun [aut, cre],\nGenentech, Inc. [cph]",
  "Maintainer": "Aaron Lun <infinite.monkeys.with.keyboards@gmail.com>",
  "_user": "bioc-release",
  "_type": "src",
  "_file": "BumpyMatrix_1.20.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/e72dea952e5f933c1358278d226061fe1d7919cd8f1c38a56f7d28bee2db8122",
  "_filesize": 146504,
  "_sha256": "e72dea952e5f933c1358278d226061fe1d7919cd8f1c38a56f7d28bee2db8122",
  "_expires": "2027-02-09T18:49:18.000Z",
  "_created": "2026-11-01T17:20:14.000Z",
  "_published": "2026-11-01T18:49:20.764Z",
  "_upstream": "https://github.com/bioc/BumpyMatrix",
  "_status": "success",
  "_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
  },
  "_jobs": [
    {
      "job": 124920869960,
      "time": 139,
      "config": "bioc-checks",
      "r": "4.6.2",
      "check": "WARNING",
      "artifact": "13092859650"
    },
    {
      "job": 124920869885,
      "time": 257,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "13093995402"
    },
    {
      "job": 124920869993,
      "time": 258,
      "config": "linux-release-x86_64",
      "r": "4.6.2",
      "check": "NOTE",
      "artifact": "13093251713"
    },
    {
      "job": 124920870008,
      "time": 110,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "13095337733"
    },
    {
      "job": 124920870002,
      "time": 138,
      "config": "macos-release-arm64",
      "r": "4.6.2",
      "check": "NOTE",
      "artifact": "13094474959"
    },
    {
      "job": 124919905767,
      "time": 221,
      "config": "source",
      "r": "4.6.2",
      "check": "OK",
      "artifact": "13092349449"
    },
    {
      "job": 124920869895,
      "time": 85,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "13093761045"
    },
    {
      "job": 124920869871,
      "time": 118,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "13093022179"
    },
    {
      "job": 124920870015,
      "time": 124,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "13093312201"
    },
    {
      "job": 124920869972,
      "time": 113,
      "config": "windows-release-x86_64",
      "r": "4.6.2",
      "check": "NOTE",
      "artifact": "13093411032"
    }
  ],
  "_bioccheck": {
    "error": 0,
    "warning": 1,
    "note": 6
  },
  "_buildurl": "https://github.com/r-universe/bioc-release/actions/runs/41330645934",
  "_commit": {
    "id": "6533cb1ee20986df2e0fc376945c28412fdb34d6",
    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "committer": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "message": "bump x.y.z version to even y prior to creation of RELEASE_3_23 branch\n",
    "time": 1777380883
  },
  "_distro": "resolute",
  "_host": "GitHub-Actions",
  "_registered": true,
  "_dependencies": [
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "Matrix",
      "role": "Imports"
    },
    {
      "package": "S4Vectors",
      "role": "Imports"
    },
    {
      "package": "IRanges",
      "role": "Imports"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": false,
  "_usedby": 22,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 1
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.21.0",
      "bioc": "3.24",
      "repository": "bioc"
    },
    {
      "branch": "release",
      "version": "1.20.0",
      "bioc": "3.23",
      "repository": "bioc"
    }
  ],
  "_topics": [
    "software",
    "infrastructure",
    "datarepresentation"
  ],
  "_stars": 1,
  "_contributors": [
    {
      "user": "ltla",
      "count": 19,
      "uuid": 8166669
    },
    {
      "user": "jwokaty",
      "count": 10,
      "uuid": 1744257
    },
    {
      "user": "nturaga",
      "count": 6,
      "uuid": 2746443
    }
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 482,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 1366,
    "source": "https://www.bioconductor.org/packages/stats/bioc/BumpyMatrix"
  },
  "_devurl": "https://github.com/ltla/bumpymatrix",
  "_searchresults": 53,
  "_abi": {
    "exports": [
      {
        "key": "BumpyMatrix::BumpyAtomicMatrix",
        "hash": "8f2be648eaa2e0e8"
      },
      {
        "key": "BumpyMatrix::BumpyCharacterMatrix",
        "hash": "06147627e6021273"
      },
      {
        "key": "BumpyMatrix::BumpyDataFrameMatrix",
        "hash": "e28830223b8d85a4"
      },
      {
        "key": "BumpyMatrix::BumpyIntegerMatrix",
        "hash": "3b236eb46b59234f"
      },
      {
        "key": "BumpyMatrix::BumpyLogicalMatrix",
        "hash": "4c3f2a8e52317988"
      },
      {
        "key": "BumpyMatrix::BumpyMatrix",
        "hash": "ccec8beb56aad54b"
      },
      {
        "key": "BumpyMatrix::BumpyNumericMatrix",
        "hash": "f0eb7e6250e12529"
      },
      {
        "key": "BumpyMatrix::generic:redim",
        "hash": "dd340cf3006263a2"
      },
      {
        "key": "BumpyMatrix::generic:undim",
        "hash": "eed0a420c9cdd860"
      }
    ],
    "imports": [
      {
        "key": "BiocGenerics::generic:IQR",
        "hash": "16a0f6e15ed9bcba"
      },
      {
        "key": "BiocGenerics::generic:cbind",
        "hash": "24fd9eb44785137b"
      },
      {
        "key": "BiocGenerics::generic:grep",
        "hash": "a48e45f5f494d782"
      },
      {
        "key": "BiocGenerics::generic:grepl",
        "hash": "689a44552e2745d7"
      },
      {
        "key": "BiocGenerics::generic:mad",
        "hash": "de679bef37f0f382"
      },
      {
        "key": "BiocGenerics::generic:pmax",
        "hash": "5404e810bffbd059"
      },
      {
        "key": "BiocGenerics::generic:pmax.int",
        "hash": "6492a03d57c5cf22"
      },
      {
        "key": "BiocGenerics::generic:pmin",
        "hash": "ceba607e98a500ae"
      },
      {
        "key": "BiocGenerics::generic:pmin.int",
        "hash": "dc62a9012644c93e"
      },
      {
        "key": "BiocGenerics::generic:rbind",
        "hash": "f0a899e378313bb5"
      },
      {
        "key": "BiocGenerics::generic:sd",
        "hash": "b437d68a33ff89d3"
      },
      {
        "key": "BiocGenerics::generic:var",
        "hash": "f5f282f94dc9f049"
      },
      {
        "key": "BiocGenerics::generic:which.max",
        "hash": "d0c51d8b679775bf"
      },
      {
        "key": "BiocGenerics::generic:which.min",
        "hash": "1602b324d3f386c8"
      },
      {
        "key": "IRanges::generic:commonColnames",
        "hash": "19275dec7021b348"
      },
      {
        "key": "IRanges::generic:commonColnames<-",
        "hash": "3a6337ab07c713f5"
      },
      {
        "key": "S4Vectors::generic:unstrsplit",
        "hash": "929608f33e1aaac6"
      }
    ]
  },
  "_rbuild": "4.6.2",
  "_assets": [
    "extra/BumpyMatrix.html",
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/manual.pdf",
    "extra/readme.html",
    "extra/readme.md",
    "LICENSE"
  ],
  "_homeurl": "https://github.com/ltla/bumpymatrix",
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "BumpyMatrix",
    "cbind",
    "chartr",
    "commonColnames",
    "commonColnames<-",
    "cor",
    "cov",
    "endsWith",
    "grep",
    "grepl",
    "gsub",
    "IQR",
    "mad",
    "Math",
    "Math2",
    "mean",
    "median",
    "nchar",
    "Ops",
    "pmax",
    "pmax.int",
    "pmin",
    "pmin.int",
    "quantile",
    "rbind",
    "redim",
    "sd",
    "show",
    "splitAsBumpyMatrix",
    "startsWith",
    "sub",
    "substr",
    "substring",
    "Summary",
    "t",
    "tolower",
    "toupper",
    "undim",
    "unsplitAsDataFrame",
    "unstrsplit",
    "var",
    "which.max",
    "which.min"
  ],
  "_help": [
    {
      "page": "BumpyAtomicMatrix",
      "title": "The BumpyAtomicMatrix subclass",
      "topics": [
        "!,BumpyAtomicMatrix-method",
        "BumpyAtomicMatrix",
        "BumpyAtomicMatrix-class",
        "BumpyCharacterMatrix-class",
        "BumpyIntegerMatrix-class",
        "BumpyLogicalMatrix-class",
        "BumpyNumericMatrix-class",
        "chartr,ANY,ANY,BumpyCharacterMatrix-method",
        "cor,BumpyAtomicMatrix,BumpyAtomicMatrix-method",
        "cov,BumpyAtomicMatrix,BumpyAtomicMatrix-method",
        "endsWith,BumpyCharacterMatrix-method",
        "grep,ANY,BumpyCharacterMatrix-method",
        "grepl,ANY,BumpyCharacterMatrix-method",
        "gsub,ANY,ANY,BumpyCharacterMatrix-method",
        "IQR,BumpyAtomicMatrix-method",
        "mad,BumpyAtomicMatrix-method",
        "Math,BumpyAtomicMatrix-method",
        "Math2,BumpyAtomicMatrix-method",
        "mean,BumpyAtomicMatrix-method",
        "median,BumpyAtomicMatrix-method",
        "nchar,BumpyCharacterMatrix-method",
        "Ops,atomic,BumpyAtomicMatrix-method",
        "Ops,BumpyAtomicMatrix,atomic-method",
        "Ops,BumpyAtomicMatrix,BumpyAtomicMatrix-method",
        "Ops,BumpyAtomicMatrix,matrix-method",
        "Ops,BumpyAtomicMatrix,missing-method",
        "Ops,matrix,BumpyAtomicMatrix-method",
        "pmax,BumpyAtomicMatrix-method",
        "pmax.int,BumpyAtomicMatrix-method",
        "pmin,BumpyAtomicMatrix-method",
        "pmin.int,BumpyAtomicMatrix-method",
        "quantile,BumpyAtomicMatrix-method",
        "range,BumpyAtomicMatrix-method",
        "sd,BumpyAtomicMatrix-method",
        "show,BumpyAtomicMatrix-method",
        "startsWith,BumpyCharacterMatrix-method",
        "sub,ANY,ANY,BumpyCharacterMatrix-method",
        "substr,BumpyCharacterMatrix-method",
        "substring,BumpyCharacterMatrix-method",
        "Summary,BumpyAtomicMatrix-method",
        "tolower,BumpyCharacterMatrix-method",
        "toupper,BumpyCharacterMatrix-method",
        "unstrsplit,BumpyCharacterMatrix-method",
        "var,BumpyAtomicMatrix,BumpyAtomicMatrix-method",
        "var,BumpyAtomicMatrix,missing-method",
        "which.max,BumpyAtomicMatrix-method",
        "which.min,BumpyAtomicMatrix-method"
      ]
    },
    {
      "page": "BumpyDataFrameMatrix",
      "title": "The BumpyDataFrameMatrix class",
      "topics": [
        "BumpyDataFrameMatrix",
        "BumpyDataFrameMatrix-class",
        "commonColnames,BumpyDataFrameMatrix-method",
        "commonColnames<-,BumpyDataFrameMatrix-method",
        "show,BumpyDataFrameMatrix-method",
        "[,BumpyDataFrameMatrix,ANY,ANY,ANY-method",
        "[,BumpyDataFrameMatrix,ANY-method",
        "[,BumpyDataFrameMatrix,BumpyMatrix,ANY,ANY-method",
        "[,BumpyDataFrameMatrix,BumpyMatrix-method",
        "[<-,BumpyDataFrameMatrix,ANY,ANY,BumpyMatrix-method"
      ]
    },
    {
      "page": "BumpyMatrix",
      "title": "The BumpyMatrix class",
      "topics": [
        "BumpyMatrix",
        "BumpyMatrix-class",
        "cbind,BumpyMatrix-method",
        "dim,BumpyMatrix-method",
        "dimnames,BumpyMatrix-method",
        "dimnames<-,BumpyMatrix,ANY-method",
        "length,BumpyMatrix-method",
        "lengths,BumpyMatrix-method",
        "rbind,BumpyMatrix-method",
        "redim",
        "redim,CompressedList,BumpyMatrix-method",
        "show,BumpyMatrix-method",
        "t,BumpyMatrix-method",
        "undim",
        "undim,BumpyMatrix-method",
        "unlist,BumpyMatrix-method",
        "[,BumpyMatrix,ANY,ANY,ANY-method",
        "[,BumpyMatrix,ANY-method",
        "[,BumpyMatrix,BumpyMatrix,ANY,ANY-method",
        "[,BumpyMatrix,BumpyMatrix-method",
        "[<-,BumpyMatrix,ANY,ANY,BumpyMatrix-method",
        "[<-,BumpyMatrix,ANY,ANY,CompressedList-method"
      ]
    },
    {
      "page": "splitAsBumpyMatrix",
      "title": "Split to a BumpyMatrix",
      "topics": [
        "splitAsBumpyMatrix"
      ]
    },
    {
      "page": "unsplitAsDataFrame",
      "title": "Unsplit a BumpyMatrix",
      "topics": [
        "unsplitAsDataFrame"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/BumpyMatrix/raw/RELEASE_3_23/README.md",
  "_rundeps": [
    "BiocGenerics",
    "generics",
    "IRanges",
    "lattice",
    "Matrix",
    "S4Vectors"
  ],
  "_vignettes": [
    {
      "source": "BumpyMatrix.Rmd",
      "filename": "BumpyMatrix.html",
      "title": "Using BumpyMatrix objects",
      "author": "Aaron Lun",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Overview",
        "Construction",
        "Basic operations",
        "Advanced subsetting",
        "Additional operations",
        "Session information"
      ],
      "created": "2020-11-25 21:28:10",
      "modified": "2021-01-08 17:35:25",
      "commits": 6
    }
  ],
  "_score": 6.980300500152152,
  "_indexed": false,
  "_nocasepkg": "bumpymatrix",
  "_universes": [
    "bioc-release"
  ],
  "_indexurl": "https://bioc.r-universe.dev/BumpyMatrix",
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.20.0",
      "date": "2026-11-01T17:24:57.000Z",
      "distro": "resolute",
      "commit": "6533cb1ee20986df2e0fc376945c28412fdb34d6",
      "fileid": "https://r2.ropensci.org/f2d297d898e345d0c439c16144f4527747c3ce753b7be917ae8a56da106b1071",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/41330645934"
    },
    {
      "r": "4.6.2",
      "os": "linux",
      "version": "1.20.0",
      "date": "2026-11-01T17:24:52.000Z",
      "distro": "resolute",
      "commit": "6533cb1ee20986df2e0fc376945c28412fdb34d6",
      "fileid": "https://r2.ropensci.org/2eb16e08d305fb88dd635e1829292c623ca90c768a875e4e501a143c7aef2b6d",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/41330645934"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.20.0",
      "date": "2026-11-01T18:25:26.000Z",
      "commit": "6533cb1ee20986df2e0fc376945c28412fdb34d6",
      "fileid": "https://r2.ropensci.org/832b755260e6ef397aa37d7a40628811ff2283e32560017532b81763a37353a7",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/41330645934"
    },
    {
      "r": "4.6.2",
      "os": "mac",
      "version": "1.20.0",
      "date": "2026-11-01T18:30:22.000Z",
      "commit": "6533cb1ee20986df2e0fc376945c28412fdb34d6",
      "fileid": "https://r2.ropensci.org/f37b382e4c08d32f044a6f358e693e49ca0ea35aae63def37e0cbbd447fd7580",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/41330645934"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.20.0",
      "date": "2026-11-01T17:23:02.000Z",
      "commit": "6533cb1ee20986df2e0fc376945c28412fdb34d6",
      "fileid": "https://r2.ropensci.org/dcd9f5ada64b66e071f0168635da0d7acabe90213a1934e5b7d4038846020118",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/41330645934"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.20.0",
      "date": "2026-11-01T17:22:14.000Z",
      "commit": "6533cb1ee20986df2e0fc376945c28412fdb34d6",
      "fileid": "https://r2.ropensci.org/acaac8f66a580cce32a5ffdfac8ab1bb11064e8eaa3e33cfca8e0fbc534570f5",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/41330645934"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.20.0",
      "date": "2026-11-01T17:22:24.000Z",
      "commit": "6533cb1ee20986df2e0fc376945c28412fdb34d6",
      "fileid": "https://r2.ropensci.org/cc85dae160f7c9f3d5d276031497c81205741374fe32ce006a50137bf64a3c2e",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/41330645934"
    },
    {
      "r": "4.6.2",
      "os": "win",
      "version": "1.20.0",
      "date": "2026-11-01T17:22:13.000Z",
      "commit": "6533cb1ee20986df2e0fc376945c28412fdb34d6",
      "fileid": "https://r2.ropensci.org/2e39e4637b9806db3590f1a58950a79944b35bce29a5a8a5a5064e5787c2bc38",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/41330645934"
    }
  ]
}