{
  "_id": "6a478fd88b9f0d9747cf12de",
  "Package": "plotHMM",
  "Type": "Package",
  "Title": "Plot Hidden Markov Models",
  "Version": "2025.7.23",
  "Authors@R": "c(\nperson(\"Toby\", \"Hocking\",\nemail=\"toby.hocking@r-project.org\",\nrole=c(\"aut\", \"cre\")))",
  "Description": "Hidden Markov Models are useful for modeling sequential\ndata. This package provides several functions implemented in\nC++ for explaining the algorithms used for Hidden Markov Models\n(forward, backward, decoding, learning).",
  "License": "GPL (>= 2)",
  "VignetteBuilder": "knitr",
  "Repository": "https://tdhock.r-universe.dev",
  "Date/Publication": "2025-07-23 18:50:41 UTC",
  "RemoteUrl": "https://github.com/tdhock/plothmm",
  "RemoteRef": "HEAD",
  "RemoteSha": "be92fc1a960e1ae3af9788c7877b5554f27f5217",
  "NeedsCompilation": "yes",
  "Packaged": {
    "Date": "2026-07-02 08:31:37 UTC",
    "User": "root"
  },
  "Author": "Toby Hocking [aut, cre]",
  "Maintainer": "Toby Hocking <toby.hocking@r-project.org>",
  "_user": "tdhock",
  "_type": "src",
  "_file": "plotHMM_2025.7.23.tar.gz",
  "_fileid": "https://r2.ropensci.org/19db1bfcb58899ceaba6abf40d668f77a6ddf675097d08e89810dcccc9b977ac",
  "_filesize": 773920,
  "_sha256": "19db1bfcb58899ceaba6abf40d668f77a6ddf675097d08e89810dcccc9b977ac",
  "_expires": "2026-10-11T10:32:55.000Z",
  "_created": "2026-07-02T08:31:37.000Z",
  "_published": "2026-07-03T10:32:56.148Z",
  "_jobs": [
    {
      "job": 84981412895,
      "time": 147,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "8033227342"
    },
    {
      "job": 84981412522,
      "time": 157,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "8033230533"
    },
    {
      "job": 84981412278,
      "time": 174,
      "config": "linux-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8033238503"
    },
    {
      "job": 84981412193,
      "time": 147,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8033226669"
    },
    {
      "job": 84981412801,
      "time": 111,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8033212540"
    },
    {
      "job": 84981412523,
      "time": 242,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8033262709"
    },
    {
      "job": 84981412085,
      "time": 139,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8033223629"
    },
    {
      "job": 84981412182,
      "time": 217,
      "config": "macos-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8033253564"
    },
    {
      "job": 84981412079,
      "time": 226,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8033167764"
    },
    {
      "job": 84981412886,
      "time": 174,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "8033236428"
    },
    {
      "job": 84981412824,
      "time": 147,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "8033226353"
    },
    {
      "job": 84981412483,
      "time": 140,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8033223714"
    },
    {
      "job": 84981412223,
      "time": 136,
      "config": "windows-release",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8033222144"
    }
  ],
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/tdhock/actions/runs/28576326136",
  "_status": "success",
  "_upstream": "https://github.com/tdhock/plothmm",
  "_commit": {
    "id": "be92fc1a960e1ae3af9788c7877b5554f27f5217",
    "author": "Toby Dylan Hocking <toby.dylan.hocking@usherbrooke.ca>",
    "committer": "Toby Dylan Hocking <toby.dylan.hocking@usherbrooke.ca>",
    "message": "upgrade check action\n",
    "time": 1753296641
  },
  "_maintainer": {
    "name": "Toby Hocking",
    "email": "toby.hocking@r-project.org",
    "login": "tdhock",
    "description": "",
    "uuid": 932850
  },
  "_distro": "resolute",
  "_registered": true,
  "_dependencies": [
    {
      "package": "Rcpp",
      "role": "LinkingTo"
    },
    {
      "package": "RcppArmadillo",
      "role": "LinkingTo"
    },
    {
      "package": "Rcpp",
      "version": ">= 1.0.7",
      "role": "Imports"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "markdown",
      "role": "Suggests"
    },
    {
      "package": "R.utils",
      "role": "Suggests"
    },
    {
      "package": "covr",
      "role": "Suggests"
    },
    {
      "package": "depmixS4",
      "role": "Suggests"
    },
    {
      "package": "data.table",
      "role": "Suggests"
    },
    {
      "package": "ggplot2",
      "role": "Suggests"
    },
    {
      "package": "neuroblastoma",
      "role": "Suggests"
    },
    {
      "package": "microbenchmark",
      "role": "Suggests"
    }
  ],
  "_owner": "tdhock",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-30",
      "n": 2
    }
  ],
  "_tags": [],
  "_stars": 0,
  "_contributors": [
    {
      "user": "tdhock",
      "count": 27,
      "uuid": 932850
    }
  ],
  "_userbio": {
    "uuid": 932850,
    "type": "user",
    "name": "Toby Dylan Hocking",
    "followers": 420
  },
  "_downloads": {
    "count": 296,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/plotHMM"
  },
  "_devurl": "https://github.com/tdhock/plothmm",
  "_searchresults": 4,
  "_topics": [
    "cpp"
  ],
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/plotHMM.html",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/tdhock/plothmm",
  "_realowner": "tdhock",
  "_cranurl": true,
  "_releases": [
    {
      "version": "2022.1.18",
      "date": "2022-01-19"
    },
    {
      "version": "2022.1.25",
      "date": "2022-01-27"
    },
    {
      "version": "2023.8.28",
      "date": "2023-09-05"
    }
  ],
  "_exports": [
    "backward_interface",
    "elnproduct",
    "elnsum",
    "forward_interface",
    "logsumexp",
    "multiply_interface",
    "pairwise_interface",
    "transition_interface",
    "viterbi_interface"
  ],
  "_datasets": [
    {
      "name": "buggy.5states",
      "title": "Buggy data with 5 states",
      "object": "buggy.5states",
      "file": "buggy.5states.RData",
      "class": [
        "data.frame"
      ],
      "fields": [
        "profile.id",
        "chromosome",
        "position",
        "logratio"
      ],
      "rows": 652,
      "table": true,
      "tojson": true
    },
    {
      "name": "buggy.data",
      "title": "Buggy data with one state",
      "object": "buggy.data",
      "file": "buggy.data.RData",
      "class": [
        "data.frame"
      ],
      "fields": [
        "profile.id",
        "chromosome",
        "position",
        "logratio"
      ],
      "rows": 3256,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "backward_interface",
      "title": "Backward algorithm",
      "topics": [
        "backward_interface"
      ]
    },
    {
      "page": "buggy.5states",
      "title": "Buggy data with 5 states",
      "topics": [
        "buggy.5states"
      ]
    },
    {
      "page": "buggy.data",
      "title": "Buggy data with one state",
      "topics": [
        "buggy.data"
      ]
    },
    {
      "page": "eln",
      "title": "Log probability arithmetic",
      "topics": [
        "elnproduct",
        "elnsum",
        "logsumexp"
      ]
    },
    {
      "page": "forward_interface",
      "title": "Forward algorithm",
      "topics": [
        "forward_interface"
      ]
    },
    {
      "page": "multiply_interface",
      "title": "Multiply algorithm",
      "topics": [
        "multiply_interface"
      ]
    },
    {
      "page": "pairwise_interface",
      "title": "Pairwise algorithm",
      "topics": [
        "pairwise_interface"
      ]
    },
    {
      "page": "transition_interface",
      "title": "Transition algorithm",
      "topics": [
        "transition_interface"
      ]
    },
    {
      "page": "viterbi_interface",
      "title": "Viterbi algorithm",
      "topics": [
        "viterbi_interface"
      ]
    }
  ],
  "_rundeps": [
    "Rcpp",
    "RcppArmadillo"
  ],
  "_sysdeps": [
    {
      "shlib": "libstdc++",
      "package": "libstdc++6",
      "source": "gcc",
      "version": "16-20260322-1ubuntu1",
      "name": "c++",
      "homepage": "http://gcc.gnu.org/",
      "description": "GNU Standard C++ Library v3"
    }
  ],
  "_vignettes": [
    {
      "source": "compare_depmixS4.Rmd",
      "filename": "compare_depmixS4.html",
      "title": "Comparison with depmixS4",
      "engine": "knitr::knitr",
      "headings": [
        "Comparison with depmixS4",
        "Simple data set where depmix errors for nstates=2",
        "Data set where nstates=5 errors",
        "Fit several data sequences",
        "How to constrain common variance parameter?",
        "Forward-backward algorithm speed comparison",
        "Viterbi algorithm speed comparison"
      ],
      "created": "2021-10-18 23:15:13",
      "modified": "2023-08-29 05:33:00",
      "commits": 5
    },
    {
      "source": "multiple_sequences.Rmd",
      "filename": "multiple_sequences.html",
      "title": "Multiple sequences",
      "engine": "knitr::knitr",
      "headings": [
        "Multiple sequences",
        "Simple data set where depmix errors for nstates=2"
      ],
      "created": "2021-10-27 06:10:08",
      "modified": "2021-10-27 06:10:08",
      "commits": 1
    }
  ],
  "_score": 3.3010299956639813,
  "_indexed": true,
  "_nocasepkg": "plothmm",
  "_universes": [
    "tdhock"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "2025.7.23",
      "date": "2026-07-02T08:34:17.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "be92fc1a960e1ae3af9788c7877b5554f27f5217",
      "fileid": "https://r2.ropensci.org/df3adb3efffd92632cb5adb6c0e54ea324d960c09f143960fca50c8abe341cb8",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/tdhock/actions/runs/28576326136"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "2025.7.23",
      "date": "2026-07-02T08:34:18.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "be92fc1a960e1ae3af9788c7877b5554f27f5217",
      "fileid": "https://r2.ropensci.org/94a1224af81a3f0ea808cd5bbad42bf65242a27b222fb8c928b78d0c9efa34ae",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/tdhock/actions/runs/28576326136"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "2025.7.23",
      "date": "2026-07-02T08:34:45.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "be92fc1a960e1ae3af9788c7877b5554f27f5217",
      "fileid": "https://r2.ropensci.org/fb54532c4d3c0bb5cd2566dba645ff7f906b0af1abefed6cc3ab23bc21ad753b",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/tdhock/actions/runs/28576326136"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "2025.7.23",
      "date": "2026-07-02T08:34:09.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "be92fc1a960e1ae3af9788c7877b5554f27f5217",
      "fileid": "https://r2.ropensci.org/5e868fe4791ea3f9e51b5ec64e55083bf2e24d3e6f782917e37ee9b3977ba058",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/tdhock/actions/runs/28576326136"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "2025.7.23",
      "date": "2026-07-02T08:33:36.000Z",
      "arch": "aarch64",
      "commit": "be92fc1a960e1ae3af9788c7877b5554f27f5217",
      "fileid": "https://r2.ropensci.org/2367b51d2b4c5ce8cc781859eeffb5bc3b424ecfb8bba84490e2c65ed52a929b",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/tdhock/actions/runs/28576326136"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "2025.7.23",
      "date": "2026-07-02T08:35:17.000Z",
      "arch": "x86_64",
      "commit": "be92fc1a960e1ae3af9788c7877b5554f27f5217",
      "fileid": "https://r2.ropensci.org/a188be49e12deae1ed3dbc90fec23e7e0e217163343cc0a7ccf51676e31bf5ce",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/tdhock/actions/runs/28576326136"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "2025.7.23",
      "date": "2026-07-02T08:33:54.000Z",
      "arch": "aarch64",
      "commit": "be92fc1a960e1ae3af9788c7877b5554f27f5217",
      "fileid": "https://r2.ropensci.org/2ce02d2e14ada3f966513a03beac301a27f6f347a6365668187133011601c30e",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/tdhock/actions/runs/28576326136"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "2025.7.23",
      "date": "2026-07-02T08:34:54.000Z",
      "arch": "x86_64",
      "commit": "be92fc1a960e1ae3af9788c7877b5554f27f5217",
      "fileid": "https://r2.ropensci.org/fc52287bbf59ec0028e95c76d909c23f757cd34f57371b15bc7fae572099cd41",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/tdhock/actions/runs/28576326136"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "2025.7.23",
      "date": "2026-07-02T08:34:42.000Z",
      "arch": "emscripten",
      "commit": "be92fc1a960e1ae3af9788c7877b5554f27f5217",
      "fileid": "https://r2.ropensci.org/51ac7350958245cd228a227e118dcc2f94727aa6b53aaaededd6c8d89d98d183",
      "status": "success",
      "buildurl": "https://github.com/r-universe/tdhock/actions/runs/28576326136"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "2025.7.23",
      "date": "2026-07-02T08:33:10.000Z",
      "arch": "x86_64",
      "commit": "be92fc1a960e1ae3af9788c7877b5554f27f5217",
      "fileid": "https://r2.ropensci.org/f8467d922db5f81f4b87eb75416c44360f6924e2116e3a8f09ddb04aee86205d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/tdhock/actions/runs/28576326136"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "2025.7.23",
      "date": "2026-07-02T08:33:24.000Z",
      "arch": "x86_64",
      "commit": "be92fc1a960e1ae3af9788c7877b5554f27f5217",
      "fileid": "https://r2.ropensci.org/e3932bdb8f7d23526b398a6b604497e67111219f90b611773ac5b06dd6370b9e",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/tdhock/actions/runs/28576326136"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "2025.7.23",
      "date": "2026-07-02T08:33:17.000Z",
      "arch": "x86_64",
      "commit": "be92fc1a960e1ae3af9788c7877b5554f27f5217",
      "fileid": "https://r2.ropensci.org/e2a86bf2331bae459195b0beb4ca76e12796afa1c963d1113a8016ec3c726c47",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/tdhock/actions/runs/28576326136"
    }
  ]
}