{
  "_id": "6ab62c6d99f7aa8c6aa2baf7",
  "Package": "HMMHSMM",
  "Type": "Package",
  "Title": "Inference and Estimation of Hidden Markov Models and Hidden\nSemi-Markov Models",
  "Version": "0.1.0",
  "Authors@R": "c(person(\"Aimee\", \"Cody\", email = \"codai942@student.otago.ac.nz\", role = c(\"aut\")), person(\"Ting\", \"Wang\",email = \"ting.wang@otago.ac.nz\", role = c(\"cre\", \"ctb\"), comment = \"Research Supervisor\"))",
  "Maintainer": "Ting Wang <ting.wang@otago.ac.nz>",
  "Description": "Provides flexible maximum likelihood estimation and\ninference for Hidden Markov Models (HMMs) and Hidden\nSemi-Markov Models (HSMMs), as well as the underlying systems\nin which they operate. The package supports a wide range of\nobservation and dwell-time distributions, offering a flexible\nmodelling framework suitable for diverse practical data.\nEfficient implementations of the forward-backward and Viterbi\nalgorithms are provided via 'Rcpp' for enhanced computational\nperformance. Additional functionality includes model\nsimulation, residual analysis, non-initialised estimation,\nlocal and global decoding, calculation of diverse information\ncriteria, computation of confidence intervals using parametric\nbootstrap methods, numerical covariance matrix estimation, and\ncomprehensive visualisation functions for interpreting the\ndata-generating processes inferred from the models. Methods\nfollow standard approaches described by Guédon (2003)\n<doi:10.1198/1061860032030>, Zucchini and MacDonald (2009,\nISBN:9781584885733), and O'Connell and Højsgaard (2011)\n<doi:10.18637/jss.v039.i04>.",
  "License": "GPL-3",
  "Encoding": "UTF-8",
  "LazyData": "true",
  "RoxygenNote": "7.3.2",
  "NeedsCompilation": "yes",
  "Packaged": {
    "Date": "2026-09-25 08:05:27 UTC",
    "User": "root"
  },
  "Author": "Aimee Cody [aut], Ting Wang [cre, ctb] (Research Supervisor)",
  "Repository": "https://cran.r-universe.dev",
  "Date/Publication": "2025-12-18 14:20:10 UTC",
  "RemoteUrl": "https://github.com/cran/HMMHSMM",
  "RemoteRef": "HEAD",
  "RemoteSha": "89b811c1c0f7cd9cce4d16b20e1fdd4bf49fb607",
  "_user": "cran",
  "_type": "src",
  "_file": "HMMHSMM_0.1.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/33fc44d0eef986a6f02253148b3551d1d2c6bd9ce93af4b43ce8449e73d11c44",
  "_filesize": 421938,
  "_sha256": "33fc44d0eef986a6f02253148b3551d1d2c6bd9ce93af4b43ce8449e73d11c44",
  "_expires": "2027-01-03T08:10:20.000Z",
  "_created": "2026-09-25T08:05:27.000Z",
  "_published": "2026-09-25T08:10:21.783Z",
  "_jobs": [
    {
      "job": 107994426894,
      "time": 124,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "10853251371"
    },
    {
      "job": 107994426739,
      "time": 142,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "10853500904"
    },
    {
      "job": 107994426761,
      "time": 112,
      "config": "linux-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "10853396173"
    },
    {
      "job": 107994426828,
      "time": 138,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "10853051617"
    },
    {
      "job": 107993024915,
      "time": 299,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "10853281044"
    },
    {
      "job": 107994426592,
      "time": 129,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "10853127612"
    },
    {
      "job": 107994426696,
      "time": 243,
      "config": "windows-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "10853670561"
    },
    {
      "job": 107994426740,
      "time": 154,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "10853590787"
    },
    {
      "job": 107994426679,
      "time": 247,
      "config": "windows-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "10853266675"
    },
    {
      "job": 107994426782,
      "time": 115,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "10853047501"
    }
  ],
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/cran/actions/runs/36110570865",
  "_status": "success",
  "_upstream": "https://github.com/cran/HMMHSMM",
  "_commit": {
    "id": "89b811c1c0f7cd9cce4d16b20e1fdd4bf49fb607",
    "author": "Ting Wang <ting.wang@otago.ac.nz>",
    "committer": "cran-robot <csardi.gabor+cran@gmail.com>",
    "message": "version 0.1.0\n",
    "time": 1766067610
  },
  "_maintainer": {
    "name": "Ting Wang",
    "email": "ting.wang@otago.ac.nz"
  },
  "_distro": "resolute",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.5.0",
      "role": "Depends"
    },
    {
      "package": "Rcpp",
      "role": "LinkingTo"
    },
    {
      "package": "Rcpp",
      "version": ">= 1.0.0",
      "role": "Imports"
    },
    {
      "package": "evd",
      "role": "Imports"
    },
    {
      "package": "extRemes",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "MASS",
      "role": "Imports"
    },
    {
      "package": "mnormt",
      "role": "Imports"
    },
    {
      "package": "grDevices",
      "role": "Imports"
    },
    {
      "package": "graphics",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    }
  ],
  "_owner": "cran",
  "_selfowned": false,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-51",
      "n": 1
    }
  ],
  "_tags": [
    {
      "name": "0.1.0",
      "date": "2025-12-18"
    }
  ],
  "_stars": 0,
  "_userbio": {
    "uuid": 6899542,
    "type": "organization",
    "name": "cran",
    "followers": 630,
    "description": "Unofficial read-only mirror of all CRAN R packages"
  },
  "_downloads": {
    "count": 230,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/HMMHSMM"
  },
  "_searchresults": 0,
  "_topics": [
    "cpp"
  ],
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/HMMHSMM.html",
    "extra/manual.pdf"
  ],
  "_realowner": "cran",
  "_cranurl": false,
  "_releases": [
    {
      "version": "0.1.0",
      "date": "2025-12-18"
    }
  ],
  "_exports": [
    "conditionalreturnsHMMgev",
    "conditionalreturnsHSMMgev",
    "confintHMM",
    "confintHSMM",
    "exceedanceplotHMMgev",
    "exceedanceplotHSMMgev",
    "findmleHMM",
    "findmleHMMnostarting",
    "findmleHSMM",
    "findmleHSMMnostarting",
    "generateHMM",
    "generateHSMM",
    "globaldecodeHMM",
    "globaldecodeHSMM",
    "HMMVarianceMatrix",
    "HSMMVarianceMatrix",
    "IC",
    "localdecodeHMM",
    "localdecodeHSMM",
    "plotHMMParameters",
    "plotHSMMParameters",
    "residualsHMM",
    "residualsHSMM"
  ],
  "_datasets": [
    {
      "name": "daily_maxima",
      "title": "Daily maxima of geomagnetic rate-of-change data from Eskdalemuir Magnetic Observatory",
      "object": "daily_maxima",
      "class": [
        "numeric"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "weekly_maxima",
      "title": "Weekly maxima of geomagnetic rate-of-change data from Eskdalemuir Magnetic Observatory",
      "object": "weekly_maxima",
      "class": [
        "numeric"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "conditionalreturnsHMMgev",
      "title": "Plot Conditional Return Levels from GEV-HMM",
      "topics": [
        "conditionalreturnsHMMgev"
      ]
    },
    {
      "page": "conditionalreturnsHSMMgev",
      "title": "Plot Conditional Return Levels from GEV-HSMM",
      "topics": [
        "conditionalreturnsHSMMgev"
      ]
    },
    {
      "page": "confintHMM",
      "title": "Bootstrap Confidence Intervals for Hidden Markov Models",
      "topics": [
        "confintHMM"
      ]
    },
    {
      "page": "confintHSMM",
      "title": "Bootstrap Confidence Intervals for Hidden Semi-Markov Models",
      "topics": [
        "confintHSMM"
      ]
    },
    {
      "page": "daily_maxima",
      "title": "Daily maxima of geomagnetic rate-of-change data from Eskdalemuir Magnetic Observatory",
      "topics": [
        "daily_maxima"
      ]
    },
    {
      "page": "exceedanceplotHMMgev",
      "title": "Plot Exceedance Probabilities from GEV-HMM",
      "topics": [
        "exceedanceplotHMMgev"
      ]
    },
    {
      "page": "exceedanceplotHSMMgev",
      "title": "Plot Exceedance Probabilities from GEV-HSMM",
      "topics": [
        "exceedanceplotHSMMgev"
      ]
    },
    {
      "page": "findmleHMM",
      "title": "Maximum Likelihood Estimation for Hidden Markov Models",
      "topics": [
        "findmleHMM"
      ]
    },
    {
      "page": "findmleHMMnostarting",
      "title": "Multiple Initialization Maximum Likelihood Estimation for Hidden Markov Models",
      "topics": [
        "findmleHMMnostarting"
      ]
    },
    {
      "page": "findmleHSMM",
      "title": "Maximum Likelihood Estimation for Hidden Semi-Markov Models",
      "topics": [
        "findmleHSMM"
      ]
    },
    {
      "page": "findmleHSMMnostarting",
      "title": "Fit Hidden Semi-Markov Model (HSMM) Without User-Provided Starting Values",
      "topics": [
        "findmleHSMMnostarting"
      ]
    },
    {
      "page": "generateHMM",
      "title": "Generate Data from a Hidden Markov Model",
      "topics": [
        "generateHMM"
      ]
    },
    {
      "page": "generateHSMM",
      "title": "Generate Data from a Hidden Semi-Markov Model",
      "topics": [
        "generateHSMM"
      ]
    },
    {
      "page": "globaldecodeHMM",
      "title": "Global Decoding for Hidden Markov Models",
      "topics": [
        "globaldecodeHMM"
      ]
    },
    {
      "page": "globaldecodeHSMM",
      "title": "Global Decoding of Hidden Semi-Markov Models",
      "topics": [
        "globaldecodeHSMM"
      ]
    },
    {
      "page": "HMMVarianceMatrix",
      "title": "Variance-Covariance Matrix for Hidden Markov Models",
      "topics": [
        "HMMVarianceMatrix"
      ]
    },
    {
      "page": "HSMMVarianceMatrix",
      "title": "Variance-Covariance Matrix for Hidden Semi-Markov Models",
      "topics": [
        "HSMMVarianceMatrix"
      ]
    },
    {
      "page": "IC",
      "title": "Calculate Information Criteria for HMM/HSMM Models",
      "topics": [
        "IC"
      ]
    },
    {
      "page": "localdecodeHMM",
      "title": "Local Decoding for Hidden Markov Models",
      "topics": [
        "localdecodeHMM"
      ]
    },
    {
      "page": "localdecodeHSMM",
      "title": "Local Decoding for Hidden Semi-Markov Models",
      "topics": [
        "localdecodeHSMM"
      ]
    },
    {
      "page": "plotHMMParameters",
      "title": "Plot Hidden Markov Model Parameters Over Time",
      "topics": [
        "plotHMMParameters"
      ]
    },
    {
      "page": "plotHSMMParameters",
      "title": "Plot Hidden Semi-Markov Model Parameters Over Time",
      "topics": [
        "plotHSMMParameters"
      ]
    },
    {
      "page": "residualsHMM",
      "title": "Ordinary Residuals for Hidden Markov Models",
      "topics": [
        "residualsHMM"
      ]
    },
    {
      "page": "residualsHSMM",
      "title": "Ordinary Residuals for Hidden Semi-Markov Models",
      "topics": [
        "residualsHSMM"
      ]
    },
    {
      "page": "weekly_maxima",
      "title": "Weekly maxima of geomagnetic rate-of-change data from Eskdalemuir Magnetic Observatory",
      "topics": [
        "weekly_maxima"
      ]
    }
  ],
  "_rundeps": [
    "distillery",
    "evd",
    "extRemes",
    "Lmoments",
    "MASS",
    "mnormt",
    "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"
    }
  ],
  "_score": 1,
  "_indexed": true,
  "_nocasepkg": "hmmhsmm",
  "_universes": [
    "cran"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.1.0",
      "date": "2026-09-25T08:07:29.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "89b811c1c0f7cd9cce4d16b20e1fdd4bf49fb607",
      "fileid": "https://r2.ropensci.org/a6281dcf4fdf5e631a1080f64b18ac4bff10417b5c0a02107383d1b3faa0d5cb",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/36110570865"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.1.0",
      "date": "2026-09-25T08:07:37.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "89b811c1c0f7cd9cce4d16b20e1fdd4bf49fb607",
      "fileid": "https://r2.ropensci.org/c80246396b60f726c288d8dd03064a7ff4328f6983b21760f90b9c144ed2e50d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/36110570865"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "0.1.0",
      "date": "2026-09-25T08:07:20.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "89b811c1c0f7cd9cce4d16b20e1fdd4bf49fb607",
      "fileid": "https://r2.ropensci.org/f45f06c796e1022f5202604b30b14f8a387c4cce3ce94de60ad532b450e75b6e",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/36110570865"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "0.1.0",
      "date": "2026-09-25T08:07:36.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "89b811c1c0f7cd9cce4d16b20e1fdd4bf49fb607",
      "fileid": "https://r2.ropensci.org/01a776e97809a0cc9558e016ab799da444ea9b5d539fd4b19c6e794478b8aec2",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/36110570865"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.1.0",
      "date": "2026-09-25T08:07:59.000Z",
      "arch": "emscripten",
      "commit": "89b811c1c0f7cd9cce4d16b20e1fdd4bf49fb607",
      "fileid": "https://r2.ropensci.org/fe1ec32161b073153f0c0782c0e92218fb68b480f741b6db34f8571296dbc1b1",
      "status": "success",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/36110570865"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.1.0",
      "date": "2026-09-25T08:09:10.000Z",
      "arch": "aarch64",
      "commit": "89b811c1c0f7cd9cce4d16b20e1fdd4bf49fb607",
      "fileid": "https://r2.ropensci.org/2317daee544fa09975c10c9ddb1bf800349b629a931a2512c12ba2547495dcf5",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/36110570865"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.1.0",
      "date": "2026-09-25T08:06:41.000Z",
      "arch": "x86_64",
      "commit": "89b811c1c0f7cd9cce4d16b20e1fdd4bf49fb607",
      "fileid": "https://r2.ropensci.org/75a9c4918fc1cbddf3c7f3cd6160d228e79a6fb619aa9568be484a88317686fa",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/36110570865"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "0.1.0",
      "date": "2026-09-25T08:09:16.000Z",
      "arch": "aarch64",
      "commit": "89b811c1c0f7cd9cce4d16b20e1fdd4bf49fb607",
      "fileid": "https://r2.ropensci.org/791c819ce7cdf7d2e3418b610270944561d014d8ed1b1d07f4d169ab62829cba",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/36110570865"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "0.1.0",
      "date": "2026-09-25T08:06:59.000Z",
      "arch": "x86_64",
      "commit": "89b811c1c0f7cd9cce4d16b20e1fdd4bf49fb607",
      "fileid": "https://r2.ropensci.org/bcc2e7b57f8356f2cb82ea3a08b7e9f79615b7988e0fe09258d87a47ce6e0010",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/36110570865"
    }
  ]
}