{
  "_id": "6a2a94567b7a29ca6004e2af",
  "Package": "coca",
  "Title": "Cluster-of-Clusters Analysis",
  "Version": "1.1.0",
  "Authors@R": "c(person(given = \"Alessandra\", family = \"Cabassi\", email = \"alessandra.cabassi@mrc-bsu.cam.ac.uk\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-1605-652X\")), person(given = \"Paul DW\", family = \"Kirk\", email = \"paul.kirk@mrc-bsu.cam.ac.uk\", role = c(\"ths\"), comment = c(ORCID = \"0000-0002-5931-7489\")))",
  "Author": "Alessandra Cabassi [aut, cre]\n(<https://orcid.org/0000-0003-1605-652X>), Paul DW Kirk [ths]\n(<https://orcid.org/0000-0002-5931-7489>)",
  "Description": "Contains the R functions needed to perform\nCluster-Of-Clusters Analysis (COCA) and Consensus Clustering\n(CC). For further details please see Cabassi and Kirk (2020)\n<doi:10.1093/bioinformatics/btaa593>.",
  "License": "MIT + file LICENSE",
  "URL": "http://github.com/acabassi/coca",
  "BugReports": "http://github.com/acabassi/coca/issues",
  "Encoding": "UTF-8",
  "RoxygenNote": "7.1.0",
  "VignetteBuilder": "knitr",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-06-11 10:25:52 UTC",
    "User": "root"
  },
  "Maintainer": "Alessandra Cabassi <alessandra.cabassi@mrc-bsu.cam.ac.uk>",
  "Config/pak/sysreqs": "libicu-dev",
  "Repository": "https://cranhaven.r-universe.dev",
  "Date/Publication": "2026-06-11 02:02:00 UTC",
  "RemoteUrl": "https://github.com/cranhaven/cranhaven.r-universe.dev",
  "RemoteRef": "package/coca",
  "RemoteSha": "97c71fa39cb2fcc0a7c277c73cbbc64f754e837f",
  "RemoteSubdir": "coca",
  "MD5sum": "cef15501f7e51051b6606c09a4f1f09b",
  "_user": "cranhaven",
  "_type": "src",
  "_file": "coca_1.1.0.tar.gz",
  "_fileid": "778a4fd1c097cc55c396f67a2482d846d274312c2ba1d342fb5995fa46c43a01",
  "_filesize": 298760,
  "_sha256": "778a4fd1c097cc55c396f67a2482d846d274312c2ba1d342fb5995fa46c43a01",
  "_created": "2026-06-11T10:25:52.000Z",
  "_published": "2026-06-11T10:56:22.299Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 80775551674,
      "time": 140,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7561550538"
    },
    {
      "job": 80775551699,
      "time": 138,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7561549824"
    },
    {
      "job": 80775551660,
      "time": 90,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7562074243"
    },
    {
      "job": 80775551653,
      "time": 91,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7562138942"
    },
    {
      "job": 80774814018,
      "time": 244,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7561499654"
    },
    {
      "job": 80775551673,
      "time": 113,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7561540658"
    },
    {
      "job": 80775551677,
      "time": 98,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7561535006"
    },
    {
      "job": 80775551666,
      "time": 99,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7561535911"
    },
    {
      "job": 80775551708,
      "time": 98,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7561535626"
    }
  ],
  "_buildurl": "https://github.com/r-universe/cranhaven/actions/runs/27340209798",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/cranhaven/cranhaven.r-universe.dev",
  "_commit": {
    "id": "97c71fa39cb2fcc0a7c277c73cbbc64f754e837f",
    "author": "GitHub Action <action@github.com>",
    "committer": "GitHub Action <action@github.com>",
    "message": "Add coca to CRANhaven, because archived on 2026-06-11 02:02:00 +0000\n",
    "time": 1781143320
  },
  "_maintainer": {
    "name": "Alessandra Cabassi",
    "email": "alessandra.cabassi@mrc-bsu.cam.ac.uk",
    "orcid": "0000-0003-1605-652X"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.5.0",
      "role": "Depends"
    },
    {
      "package": "caret",
      "role": "Imports"
    },
    {
      "package": "cluster",
      "role": "Imports"
    },
    {
      "package": "fpc",
      "role": "Imports"
    },
    {
      "package": "glmnet",
      "role": "Imports"
    },
    {
      "package": "Matrix",
      "role": "Imports"
    },
    {
      "package": "nnet",
      "role": "Imports"
    },
    {
      "package": "pheatmap",
      "role": "Imports"
    },
    {
      "package": "RColorBrewer",
      "role": "Imports"
    },
    {
      "package": "sparcl",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "mclust",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    }
  ],
  "_owner": "cranhaven",
  "_selfowned": true,
  "_usedby": 1,
  "_updates": [
    {
      "week": "2026-24",
      "n": 1
    }
  ],
  "_tags": [],
  "_topics": [
    "archived",
    "packages",
    "r-universe"
  ],
  "_stars": 5,
  "_contributors": [
    {
      "user": "henrikbengtsson",
      "count": 183,
      "uuid": 1616850
    }
  ],
  "_userbio": {
    "uuid": 161993010,
    "type": "organization",
    "name": "cranhaven",
    "description": "CRANhaven - Repository for Recently Archived CRAN Packages"
  },
  "_downloads": {
    "count": 278,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/coca"
  },
  "_mentions": 1,
  "_devurl": "https://github.com/acabassi/coca",
  "_searchresults": 25,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/coca.html",
    "extra/contents.json",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/acabassi/coca",
  "_realowner": "acabassi",
  "_cranurl": false,
  "_releases": [
    {
      "version": "1.0.4",
      "date": "2020-03-26"
    },
    {
      "version": "1.1.0",
      "date": "2020-07-06"
    }
  ],
  "_exports": [
    "buildMOC",
    "chooseKusingAUC",
    "coca",
    "consensusCluster",
    "expandMOC",
    "fillMOC",
    "maximiseSilhouette",
    "plotMOC"
  ],
  "_help": [
    {
      "page": "buildMOC",
      "title": "Build Matrix-Of-Clusters",
      "topics": [
        "buildMOC"
      ]
    },
    {
      "page": "chooseKusingAUC",
      "title": "Choose number of clusters based on AUC",
      "topics": [
        "chooseKusingAUC"
      ]
    },
    {
      "page": "coca",
      "title": "Cluster-Of-Clusters Analysis",
      "topics": [
        "coca"
      ]
    },
    {
      "page": "consensusCluster",
      "title": "Consensus clustering",
      "topics": [
        "consensusCluster"
      ]
    },
    {
      "page": "expandMOC",
      "title": "Expand matrix of clusters",
      "topics": [
        "expandMOC"
      ]
    },
    {
      "page": "fillMOC",
      "title": "Fill Matrix-Of-Clusters",
      "topics": [
        "fillMOC"
      ]
    },
    {
      "page": "maximiseSilhouette",
      "title": "Choose K that maximises the silhouette from a set of kernel matrices and clusterings",
      "topics": [
        "maximiseSilhouette"
      ]
    },
    {
      "page": "plotMOC",
      "title": "Plot Matrix-Of-Clusters",
      "topics": [
        "plotMOC"
      ]
    }
  ],
  "_readme": "https://github.com/cranhaven/cranhaven.r-universe.dev/raw/package/coca/coca/README.md",
  "_rundeps": [
    "caret",
    "class",
    "cli",
    "clock",
    "cluster",
    "codetools",
    "cpp11",
    "data.table",
    "DEoptimR",
    "diagram",
    "digest",
    "diptest",
    "dplyr",
    "e1071",
    "farver",
    "flexmix",
    "foreach",
    "fpc",
    "future",
    "future.apply",
    "generics",
    "ggplot2",
    "glmnet",
    "globals",
    "glue",
    "gower",
    "gtable",
    "hardhat",
    "ipred",
    "isoband",
    "iterators",
    "kernlab",
    "KernSmooth",
    "labeling",
    "lattice",
    "lava",
    "lifecycle",
    "listenv",
    "lubridate",
    "magrittr",
    "MASS",
    "Matrix",
    "mclust",
    "ModelMetrics",
    "modeltools",
    "nlme",
    "nnet",
    "numDeriv",
    "parallelly",
    "pheatmap",
    "pillar",
    "pkgconfig",
    "plyr",
    "prabclus",
    "pROC",
    "prodlim",
    "progressr",
    "proxy",
    "purrr",
    "R6",
    "RColorBrewer",
    "Rcpp",
    "RcppEigen",
    "recipes",
    "reshape2",
    "rlang",
    "robustbase",
    "rpart",
    "S7",
    "scales",
    "shape",
    "sparcl",
    "sparsevctrs",
    "SQUAREM",
    "stringi",
    "stringr",
    "survival",
    "tibble",
    "tidyr",
    "tidyselect",
    "timechange",
    "timeDate",
    "tzdb",
    "utf8",
    "vctrs",
    "viridisLite",
    "withr"
  ],
  "_vignettes": [
    {
      "source": "coca-vignette.Rmd",
      "filename": "coca-vignette.html",
      "title": "Introduction to coca",
      "author": "Alessandra Cabassi",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Building the matrix of clusters",
        "Cluster-Of-Clusters Analysis",
        "Clustering algorithms",
        "Warning and error messages",
        "References"
      ],
      "created": "2026-06-11 02:02:00",
      "modified": "2026-06-11 02:02:00",
      "commits": 1
    }
  ],
  "_score": 4.273001272063738,
  "_indexed": false,
  "_nocasepkg": "coca",
  "_universes": [
    "cranhaven"
  ],
  "_indexurl": "https://acabassi.r-universe.dev/coca",
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.1.0",
      "date": "2026-06-11T10:28:17.000Z",
      "distro": "noble",
      "commit": "97c71fa39cb2fcc0a7c277c73cbbc64f754e837f",
      "fileid": "a059e81a419624954681eefc335b77e2c6c5f074dae5739a697938acfbe82c50",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/cranhaven/actions/runs/27340209798"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.1.0",
      "date": "2026-06-11T10:28:14.000Z",
      "distro": "noble",
      "commit": "97c71fa39cb2fcc0a7c277c73cbbc64f754e837f",
      "fileid": "b4586a186d893946bdc2532b78dcfd04eb6ac9bd90b271d07024e30e10aeda05",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/cranhaven/actions/runs/27340209798"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.1.0",
      "date": "2026-06-11T10:52:51.000Z",
      "commit": "97c71fa39cb2fcc0a7c277c73cbbc64f754e837f",
      "fileid": "b9dc68154b7dca00761507c10fde1a5c49573fbcd49f5be661d6755fcf99fb36",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/cranhaven/actions/runs/27340209798"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.1.0",
      "date": "2026-06-11T10:55:55.000Z",
      "commit": "97c71fa39cb2fcc0a7c277c73cbbc64f754e837f",
      "fileid": "27910427f721ba4fc48e8b46ac13dc18a71f6ea121faf756cac0e7b66b4eedfe",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/cranhaven/actions/runs/27340209798"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.1.0",
      "date": "2026-06-11T10:28:03.000Z",
      "commit": "97c71fa39cb2fcc0a7c277c73cbbc64f754e837f",
      "fileid": "908031f83ded630205588b852e94f62edcdd755a7eb36575561db982da346f1d",
      "status": "success",
      "buildurl": "https://github.com/r-universe/cranhaven/actions/runs/27340209798"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.1.0",
      "date": "2026-06-11T10:27:23.000Z",
      "commit": "97c71fa39cb2fcc0a7c277c73cbbc64f754e837f",
      "fileid": "2b6b611a4b4bef6439226eab7814b0b39af3e6f27929faf1d67db065d4c20c99",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/cranhaven/actions/runs/27340209798"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.1.0",
      "date": "2026-06-11T10:27:22.000Z",
      "commit": "97c71fa39cb2fcc0a7c277c73cbbc64f754e837f",
      "fileid": "88b8ea5d3ef53850ca8f4670d347f6880387e16aaa098ec11cd0d46dc76dfa9e",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/cranhaven/actions/runs/27340209798"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.1.0",
      "date": "2026-06-11T10:27:22.000Z",
      "commit": "97c71fa39cb2fcc0a7c277c73cbbc64f754e837f",
      "fileid": "60af586dda30fe8d51774522152fbd29a881e0b8c97d916b3e8dd4a26ee54329",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/cranhaven/actions/runs/27340209798"
    }
  ]
}