{
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  "Package": "pedmut",
  "Title": "Mutation Models for Pedigree Likelihood Computations",
  "Version": "0.9.1.9000",
  "Authors@R": "c(\nperson(\"Magnus Dehli\", \"Vigeland\", , \"m.d.vigeland@medisin.uio.no\", role = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0002-9134-4962\")),\nperson(\"Thore\", \"Egeland\", , \"thore.egeland@nmbu.no\", role = \"ctb\",\ncomment = c(ORCID = \"0000-0002-3465-8885\"))\n)",
  "Description": "A collection of functions for modelling mutations in\npedigrees with marker data, as used e.g. in likelihood\ncomputations with microsatellite data. Implemented models\ninclude equal, proportional and stepwise models, as well as\nrandom models for experimental work, and custom models allowing\nthe user to apply any valid mutation matrix. Allele lumping is\ndone following the lumpability criteria of Kemeny and Snell\n(1976), ISBN:0387901922.",
  "License": "GPL-3",
  "URL": "https://github.com/magnusdv/pedmut",
  "Encoding": "UTF-8",
  "Language": "en-GB",
  "Roxygen": "list(markdown = TRUE)",
  "Config/roxygen2/version": "8.1.0",
  "Repository": "https://magnusdv.r-universe.dev",
  "Date/Publication": "2026-08-30 10:33:36 UTC",
  "RemoteUrl": "https://github.com/magnusdv/pedmut",
  "RemoteRef": "HEAD",
  "RemoteSha": "7042c3d6a1212827782eb91a17151740f0ad890c",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-09-29 12:51:13 UTC",
    "User": "root"
  },
  "Author": "Magnus Dehli Vigeland [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-9134-4962>),\nThore Egeland [ctb] (ORCID: <https://orcid.org/0000-0002-3465-8885>)",
  "Maintainer": "Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>",
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  "_type": "src",
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  "_expires": "2027-01-07T13:05:10.000Z",
  "_created": "2026-09-29T12:51:13.000Z",
  "_published": "2026-09-29T13:05:12.694Z",
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    "author": "Magnus Dehli Vigeland <magnusdv@medisin.uio.no>",
    "committer": "Magnus Dehli Vigeland <magnusdv@medisin.uio.no>",
    "message": "Bump dev version\n",
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    "name": "Magnus Dehli Vigeland",
    "email": "m.d.vigeland@medisin.uio.no",
    "orcid": "0000-0002-9134-4962"
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  "_owner": "magnusdv",
  "_selfowned": true,
  "_usedby": 20,
  "_updates": [
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      "name": "v0.9.1",
      "date": "2026-05-17"
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  "_topics": [
    "mutation-modeling",
    "pedigree-analysis",
    "pedsuite"
  ],
  "_stars": 3,
  "_contributors": [
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      "user": "magnusdv",
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    "type": "user",
    "name": "Magnus Dehli Vigeland",
    "followers": 50,
    "description": "Statistical geneticist"
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    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/pedmut"
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  "_assets": [
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    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/manual.pdf",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/pedmut.html",
    "extra/readme.html",
    "extra/readme.md"
  ],
  "_homeurl": "https://github.com/magnusdv/pedmut",
  "_realowner": "magnusdv",
  "_cranurl": true,
  "_releases": [
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      "version": "0.1.0",
      "date": "2019-10-01"
    },
    {
      "version": "0.2.0",
      "date": "2020-07-30"
    },
    {
      "version": "0.3.0",
      "date": "2021-10-22"
    },
    {
      "version": "0.4.0",
      "date": "2022-11-16"
    },
    {
      "version": "0.5.0",
      "date": "2023-02-11"
    },
    {
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      "date": "2023-04-12"
    },
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      "date": "2023-11-05"
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    },
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      "date": "2025-04-29"
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  ],
  "_exports": [
    "adjustRate",
    "alwaysLumpable",
    "findStationary",
    "getParams",
    "isBounded",
    "isLumpable",
    "isMutationMatrix",
    "isMutationModel",
    "isReversible",
    "isStationary",
    "lumpedMatrix",
    "lumpedModel",
    "lumpMutSpecial",
    "makeReversible",
    "makeStationary",
    "mutationMatrix",
    "mutationModel",
    "mutRate",
    "sexEqual",
    "stabilize",
    "stepwiseReversible",
    "validateMutationMatrix",
    "validateMutationModel"
  ],
  "_help": [
    {
      "page": "adjustRate",
      "title": "Adjust the overall mutation rate of a model",
      "topics": [
        "adjustRate"
      ]
    },
    {
      "page": "findStationary",
      "title": "Find the stationary frequency distribution",
      "topics": [
        "findStationary"
      ]
    },
    {
      "page": "getParams",
      "title": "Get model parameters",
      "topics": [
        "getParams"
      ]
    },
    {
      "page": "isMutationModel",
      "title": "Test for mutation matrix/model",
      "topics": [
        "isMutationMatrix",
        "isMutationModel"
      ]
    },
    {
      "page": "lumpedMatrix",
      "title": "Combine alleles in a mutation matrix",
      "topics": [
        "lumpedMatrix",
        "lumpedModel"
      ]
    },
    {
      "page": "lumpMutSpecial",
      "title": "Special lumping of mutation models",
      "topics": [
        "lumpMutSpecial"
      ]
    },
    {
      "page": "makeReversible",
      "title": "Transformations to reversibility",
      "topics": [
        "makeReversible"
      ]
    },
    {
      "page": "makeStationary",
      "title": "Transformation (stabilisation) to stationarity",
      "topics": [
        "makeStationary"
      ]
    },
    {
      "page": "maxRate",
      "title": "Upper limits for overall mutation rate for the stepwise reversible model.",
      "topics": [
        "maxRate"
      ]
    },
    {
      "page": "model_properties",
      "title": "Mutation model properties",
      "topics": [
        "alwaysLumpable",
        "isBounded",
        "isLumpable",
        "isReversible",
        "isStationary",
        "model_properties"
      ]
    },
    {
      "page": "mutationMatrix",
      "title": "Mutation matrix",
      "topics": [
        "mutationMatrix",
        "validateMutationMatrix"
      ]
    },
    {
      "page": "mutationModel",
      "title": "Mutation models",
      "topics": [
        "mutationModel",
        "sexEqual",
        "validateMutationModel"
      ]
    },
    {
      "page": "mutRate",
      "title": "Overall mutation rate",
      "topics": [
        "mutRate"
      ]
    },
    {
      "page": "stabilize",
      "title": "Stabilization of mutation matrix",
      "topics": [
        "stabilize"
      ]
    },
    {
      "page": "stepwiseReversible",
      "title": "Dawid's reversible stepwise model",
      "topics": [
        "stepwiseReversible"
      ]
    }
  ],
  "_readme": "https://github.com/magnusdv/pedmut/raw/HEAD/README.md",
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