{
  "_id": "6a50ad1d89c83ec243a2f74a",
  "Package": "HTSCluster",
  "Type": "Package",
  "Title": "Clustering High-Throughput Transcriptome Sequencing (HTS) Data",
  "Version": "2.0.11",
  "Date": "2023-09-04",
  "Author": "Andrea Rau, Gilles Celeux, Marie-Laure Martin-Magniette, Cathy\nMaugis- Rabusseau",
  "Maintainer": "Andrea Rau <andrea.rau@jouy.inra.fr>",
  "Description": "A Poisson mixture model is implemented to cluster genes\nfrom high- throughput transcriptome sequencing (RNA-seq) data.\nParameter estimation is performed using either the EM or CEM\nalgorithm, and the slope heuristics are used for model\nselection (i.e., to choose the number of clusters).",
  "License": "GPL (>= 3)",
  "LazyLoad": "yes",
  "NeedsCompilation": "no",
  "Repository": "https://andreamrau.r-universe.dev",
  "Date/Publication": "2023-09-04 15:10:25 UTC",
  "RemoteUrl": "https://github.com/andreamrau/htscluster",
  "RemoteRef": "HEAD",
  "RemoteSha": "ca2ab810ac21a72381d472fcfe7456de7f118184",
  "Packaged": {
    "Date": "2026-07-10 08:24:41 UTC",
    "User": "root"
  },
  "_user": "andreamrau",
  "_type": "src",
  "_file": "HTSCluster_2.0.11.tar.gz",
  "_fileid": "https://r2.ropensci.org/bd90c5707007254461702a77a6e846dcaa8640567b0314b8a56167f130c8739e",
  "_filesize": 650216,
  "_sha256": "bd90c5707007254461702a77a6e846dcaa8640567b0314b8a56167f130c8739e",
  "_expires": "2026-10-18T08:28:11.000Z",
  "_created": "2026-07-10T08:24:41.000Z",
  "_published": "2026-07-10T08:28:13.503Z",
  "_jobs": [
    {
      "job": 86319441923,
      "time": 166,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "8222272256"
    },
    {
      "job": 86319441856,
      "time": 168,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8222273202"
    },
    {
      "job": 86319441917,
      "time": 114,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8222249630"
    },
    {
      "job": 86319441940,
      "time": 102,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8222244875"
    },
    {
      "job": 86318902374,
      "time": 190,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8222205466"
    },
    {
      "job": 86319442025,
      "time": 127,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "8222254906"
    },
    {
      "job": 86319441918,
      "time": 99,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "8222244541"
    },
    {
      "job": 86319441900,
      "time": 96,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8222242779"
    },
    {
      "job": 86319441925,
      "time": 98,
      "config": "windows-release",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8222243441"
    }
  ],
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/andreamrau/actions/runs/29079517771",
  "_status": "success",
  "_upstream": "https://github.com/andreamrau/htscluster",
  "_commit": {
    "id": "ca2ab810ac21a72381d472fcfe7456de7f118184",
    "author": "Andrea Rau <andrea.rau@inrae.fr>",
    "committer": "Andrea Rau <andrea.rau@inrae.fr>",
    "message": "Fix broken link in doc and update citation style\n",
    "time": 1693840225
  },
  "_maintainer": {
    "name": "Andrea Rau",
    "email": "andrea.rau@jouy.inra.fr",
    "login": "andreamrau",
    "twitter": "@andreamrau",
    "description": "\n    Research scientist in statistics + genomics\n",
    "uuid": 12795415
  },
  "_distro": "resolute",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 2.10.0",
      "role": "Depends"
    },
    {
      "package": "edgeR",
      "role": "Imports"
    },
    {
      "package": "plotrix",
      "role": "Imports"
    },
    {
      "package": "capushe",
      "role": "Imports"
    },
    {
      "package": "grDevices",
      "role": "Imports"
    },
    {
      "package": "graphics",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "HTSFilter",
      "role": "Suggests"
    },
    {
      "package": "Biobase",
      "role": "Suggests"
    }
  ],
  "_owner": "andreamrau",
  "_selfowned": true,
  "_usedby": 2,
  "_updates": [],
  "_tags": [],
  "_stars": 0,
  "_contributors": [
    {
      "user": "andreamrau",
      "count": 8,
      "uuid": 12795415
    }
  ],
  "_userbio": {
    "uuid": 12795415,
    "type": "user",
    "name": "Andrea Rau",
    "followers": 36,
    "description": "\r\n    Research scientist in statistics + genomics\r\n"
  },
  "_downloads": {
    "count": 426,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/HTSCluster"
  },
  "_mentions": 7,
  "_devurl": "https://github.com/andreamrau/htscluster",
  "_searchresults": 12,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/HTSCluster.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/andreamrau/htscluster",
  "_realowner": "andreamrau",
  "_cranurl": true,
  "_releases": [
    {
      "version": "1.0",
      "date": "2011-11-07"
    },
    {
      "version": "1.1",
      "date": "2012-06-11"
    },
    {
      "version": "2.0.0",
      "date": "2013-09-25"
    },
    {
      "version": "2.0.1",
      "date": "2013-12-10"
    },
    {
      "version": "2.0.3",
      "date": "2014-07-28"
    },
    {
      "version": "2.0.4",
      "date": "2014-08-26"
    },
    {
      "version": "2.0.8",
      "date": "2016-05-26"
    },
    {
      "version": "2.0.10",
      "date": "2022-08-24"
    },
    {
      "version": "2.0.11",
      "date": "2023-09-05"
    }
  ],
  "_exports": [
    "emInit",
    "highDimensionARI",
    "HTSClusterUsersGuide",
    "kmeanInit",
    "logLikePoisMix",
    "logLikePoisMixDiff",
    "PoisMixClus",
    "PoisMixClusWrapper",
    "PoisMixMean",
    "PoisMixSim",
    "probaPost",
    "probaPostInit",
    "splitEMInit"
  ],
  "_help": [
    {
      "page": "HTSCluster-package",
      "title": "Clustering high throughput sequencing (HTS) data",
      "topics": [
        "HTSCluster-package",
        "HTSCluster"
      ]
    },
    {
      "page": "highDimensionARI",
      "title": "Calculate ARI for high-dimensional data via data splits",
      "topics": [
        "highDimensionARI"
      ]
    },
    {
      "page": "HTSClusterUsersGuide",
      "title": "View HTSCluster User's Guide",
      "topics": [
        "HTSClusterUsersGuide"
      ]
    },
    {
      "page": "Init",
      "title": "Parameter initialization for a Poisson mixture model.",
      "topics": [
        "emInit",
        "kmeanInit",
        "probaPostInit",
        "splitEMInit"
      ]
    },
    {
      "page": "logLikePoisMix",
      "title": "Log likelihood calculation for a Poisson mixture model",
      "topics": [
        "logLikePoisMix",
        "logLikePoisMixDiff",
        "mylogLikePoisMixObs"
      ]
    },
    {
      "page": "plot.HTSCluster",
      "title": "Visualize results from clustering using a Poisson mixture model",
      "topics": [
        "plot.HTSCluster",
        "plot.HTSClusterWrapper"
      ]
    },
    {
      "page": "PoisMixClus",
      "title": "Poisson mixture model estimation and model selection",
      "topics": [
        "PoisMixClus",
        "PoisMixClusWrapper"
      ]
    },
    {
      "page": "PoisMixMean",
      "title": "Calculate the conditional per-cluster mean of each observation",
      "topics": [
        "PoisMixMean"
      ]
    },
    {
      "page": "PoisMixSim",
      "title": "Simulate data from a Poisson mixture model",
      "topics": [
        "PoisMixSim"
      ]
    },
    {
      "page": "probaPost",
      "title": "Calculate the conditional probability of belonging to each cluster in a Poisson mixture model",
      "topics": [
        "probaPost"
      ]
    },
    {
      "page": "summary.HTSCluster",
      "title": "Summarize results from clustering using a Poisson mixture model",
      "topics": [
        "summary.HTSCluster",
        "summary.HTSClusterWrapper"
      ]
    }
  ],
  "_readme": "https://github.com/andreamrau/htscluster/raw/HEAD/README.md",
  "_rundeps": [
    "capushe",
    "edgeR",
    "lattice",
    "limma",
    "locfit",
    "MASS",
    "plotrix",
    "statmod"
  ],
  "_vignettes": [
    {
      "source": "HTSCluster.Rnw",
      "filename": "HTSCluster.pdf",
      "title": "Co-expression analysis of RNA-seq data with the \"HTSCluster\" package",
      "engine": "utils::Sweave",
      "headings": [],
      "created": "2018-09-11 16:33:59",
      "modified": "2018-09-11 16:33:59",
      "commits": 1
    }
  ],
  "_score": 5.401400540781545,
  "_indexed": true,
  "_nocasepkg": "htscluster",
  "_universes": [
    "andreamrau"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "2.0.11",
      "date": "2026-07-10T08:27:26.000Z",
      "distro": "resolute",
      "commit": "ca2ab810ac21a72381d472fcfe7456de7f118184",
      "fileid": "https://r2.ropensci.org/4ef38b3adc7449fe3842a0583c6d6e587a8ed7aac6849143ffb5fa28927c1a55",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/andreamrau/actions/runs/29079517771"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "2.0.11",
      "date": "2026-07-10T08:27:28.000Z",
      "distro": "resolute",
      "commit": "ca2ab810ac21a72381d472fcfe7456de7f118184",
      "fileid": "https://r2.ropensci.org/507773d283c79aad8bfa1df2ddf4920958e211926e3064a11cb5f28060497f14",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/andreamrau/actions/runs/29079517771"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "2.0.11",
      "date": "2026-07-10T08:26:36.000Z",
      "commit": "ca2ab810ac21a72381d472fcfe7456de7f118184",
      "fileid": "https://r2.ropensci.org/6b38d7d4853719108f555eb59bc548af690fd3da48447eff3bb612848ee69052",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/andreamrau/actions/runs/29079517771"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "2.0.11",
      "date": "2026-07-10T08:26:23.000Z",
      "commit": "ca2ab810ac21a72381d472fcfe7456de7f118184",
      "fileid": "https://r2.ropensci.org/331025d0c9faecd0f43d202b5232c7c10fcf33a760f5aa721f21c78ec52d4c49",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/andreamrau/actions/runs/29079517771"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "2.0.11",
      "date": "2026-07-10T08:27:04.000Z",
      "commit": "ca2ab810ac21a72381d472fcfe7456de7f118184",
      "fileid": "https://r2.ropensci.org/05376af6e44c4cc858a13cdd4e37aed5f3acd7cb9684b304dc863eeee0e3dbc7",
      "status": "success",
      "buildurl": "https://github.com/r-universe/andreamrau/actions/runs/29079517771"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "2.0.11",
      "date": "2026-07-10T08:26:17.000Z",
      "commit": "ca2ab810ac21a72381d472fcfe7456de7f118184",
      "fileid": "https://r2.ropensci.org/8fd525dc7643fd8fcbcee7c6f6d154870d01e016c7bf7f215edb1b395d7c3906",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/andreamrau/actions/runs/29079517771"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "2.0.11",
      "date": "2026-07-10T08:26:13.000Z",
      "commit": "ca2ab810ac21a72381d472fcfe7456de7f118184",
      "fileid": "https://r2.ropensci.org/b8b230d5b1ffd41ee4c26f2a621941a6dee5036fd094b6c51fb10331229ca630",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/andreamrau/actions/runs/29079517771"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "2.0.11",
      "date": "2026-07-10T08:26:15.000Z",
      "commit": "ca2ab810ac21a72381d472fcfe7456de7f118184",
      "fileid": "https://r2.ropensci.org/36ff9ba180b5551acbecc51a3438f8440ab0dfd7aa81df9e0a5cb717015b4d5f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/andreamrau/actions/runs/29079517771"
    }
  ]
}