{
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  "Package": "entropart",
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  "Title": "Entropy Partitioning to Measure Diversity",
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  "Authors@R": "c(\nperson(\"Eric\", \"Marcon\", email=\"eric.marcon@agroparistech.fr\", role=c(\"aut\", \"cre\"), comment=c(ORCID=\"0000-0002-5249-321X\")),\nperson(\"Bruno\", \"Herault\", email=\"bruno.herault@cirad.fr\", role=\"aut\", comment=c(ORCID=\"0000-0002-6950-7286\"))\n)",
  "Description": "Measurement and partitioning of diversity, based on\nTsallis entropy, following Marcon and Herault (2015)\n<doi:10.18637/jss.v067.i08>. 'entropart' provides functions to\ncalculate alpha, beta and gamma diversity of communities,\nincluding phylogenetic and functional diversity.\nEstimation-bias corrections are available.",
  "URL": "https://ericmarcon.github.io/entropart/,\nhttps://github.com/EricMarcon/entropart/",
  "BugReports": "https://github.com/EricMarcon/entropart/issues/",
  "License": "GNU General Public License",
  "LazyData": "true",
  "VignetteBuilder": "knitr",
  "SystemRequirements": "pandoc",
  "Encoding": "UTF-8",
  "Config/pak/sysreqs": "cmake make libicu-dev",
  "Repository": "https://ericmarcon.r-universe.dev",
  "Date/Publication": "2026-01-30 14:55:16 UTC",
  "RemoteUrl": "https://github.com/ericmarcon/entropart",
  "RemoteRef": "HEAD",
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  "Packaged": {
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  "Author": "Eric Marcon [aut, cre] (ORCID: <https://orcid.org/0000-0002-5249-321X>),\nBruno Herault [aut] (ORCID: <https://orcid.org/0000-0002-6950-7286>)",
  "Maintainer": "Eric Marcon <eric.marcon@agroparistech.fr>",
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  "_user": "ericmarcon",
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    "AllenH",
    "AlphaDiversity",
    "AlphaEntropy",
    "as.AbdVector",
    "as.AccumCurve",
    "as.CommunityProfile",
    "as.ProbaVector",
    "as.SimTest",
    "as.SpeciesDistribution",
    "autoplot",
    "bcDiversity",
    "bcDqz",
    "bcGenSimpson",
    "bcGenSimpsonD",
    "bcHqz",
    "bcHqzBeta",
    "bcHurlbert",
    "bcHurlbertD",
    "bcPhyloBetaEntropy",
    "bcPhyloDiversity",
    "bcPhyloEntropy",
    "bcRao",
    "bcRichness",
    "bcShannon",
    "bcShannonBeta",
    "bcSimpson",
    "bcSimpsonBeta",
    "bcTsallis",
    "bcTsallisBeta",
    "BetaDiversity",
    "BetaEntropy",
    "CEnvelope",
    "ChaoPD",
    "CommunityProfile",
    "Coverage",
    "Coverage2Size",
    "DivAC",
    "Diversity",
    "DivEst",
    "DivPart",
    "DivProfile",
    "Dqz",
    "Enq",
    "EntAC",
    "EntropyCI",
    "expq",
    "expq.CommunityProfile",
    "GammaDiversity",
    "GammaEntropy",
    "GenSimpson",
    "GenSimpsonD",
    "Hqz",
    "HqzBeta",
    "Hurlbert",
    "HurlbertD",
    "is.AbdVector",
    "is.AccumCurve",
    "is.CommunityProfile",
    "is.DivEst",
    "is.DivPart",
    "is.DivProfile",
    "is.MCdiversity",
    "is.MCentropy",
    "is.MetaCommunity",
    "is.PhyloDiversity",
    "is.PhyloEntropy",
    "is.PhyloValue",
    "is.PPtree",
    "is.ProbaVector",
    "is.SimTest",
    "is.SpeciesDistribution",
    "KLq",
    "lnq",
    "lnq.CommunityProfile",
    "mergeandlabel",
    "MergeC",
    "MergeMC",
    "MetaCommunity",
    "Optimal.Similarity",
    "PDFD",
    "PhyloApply",
    "PhyloBetaEntropy",
    "PhyloDiversity",
    "PhyloEntropy",
    "plot",
    "Preprocess.MC",
    "Preprocess.Tree",
    "RACbstick",
    "RACgeom",
    "RAClnorm",
    "RAClseries",
    "Rao",
    "rCommunity",
    "Richness",
    "Shannon",
    "ShannonBeta",
    "ShuffleMC",
    "Simpson",
    "SimpsonBeta",
    "Tsallis",
    "TsallisBeta"
  ],
  "_datasets": [
    {
      "name": "EightSpAbundance",
      "title": "Abundances of 8 species to run examples.",
      "object": "Paracou618",
      "class": [
        "integer"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "EightSpTree",
      "title": "Functional tree with 8 species.",
      "object": "Paracou618",
      "class": [
        "phylog"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "Paracou618.dist",
      "title": "Functional distances between pairs of species of Paracou field station plots 6 and 18, two 1-ha plots inventoried by the Bridge project.",
      "object": "Paracou618",
      "class": [
        "dist"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "Paracou618.Functional",
      "title": "Functional tree of species of Paracou field station plots 6 and 18, two 1-ha plots inventoried by the Bridge project.",
      "object": "Paracou618",
      "class": [
        "hclust"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "Paracou618.MC",
      "title": "Paracou field station plots 6 and 18, two 1-ha plots inventoried by the Bridge project.",
      "object": "Paracou618",
      "class": [
        "MetaCommunity"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "Paracou618.Taxonomy",
      "title": "Taxonomy (Family - Genus - Species) of Paracou field station plots 6 and 18, two 1-ha plots inventoried by the Bridge project.",
      "object": "Paracou618",
      "class": [
        "phylo"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    }
  ],
  "_help": [
    {
      "page": "entropart-package",
      "title": "Entropy Partitioning to Measure Diversity",
      "topics": [
        "entropart-package",
        "entropart"
      ]
    },
    {
      "page": "AbdFreqCount",
      "title": "Abundance Frequency Count of a Community",
      "topics": [
        "AbdFreqCount"
      ]
    },
    {
      "page": "Accumulation",
      "title": "Diversity accumulation.",
      "topics": [
        "as.AccumCurve",
        "autoplot.AccumCurve",
        "DivAC",
        "EntAC",
        "is.AccumCurve",
        "plot.AccumCurve"
      ]
    },
    {
      "page": "AllenH",
      "title": "Phylogenetic Entropy of a Community",
      "topics": [
        "AllenH"
      ]
    },
    {
      "page": "AlphaDiversity",
      "title": "Reduced-bias alpha diversity of a metacommunity",
      "topics": [
        "AlphaDiversity"
      ]
    },
    {
      "page": "AlphaEntropy",
      "title": "Reduced-bias alpha entropy of a metacommunity",
      "topics": [
        "AlphaEntropy"
      ]
    },
    {
      "page": "BetaDiversity",
      "title": "Reduced-bias beta diversity of a metacommunity",
      "topics": [
        "BetaDiversity"
      ]
    },
    {
      "page": "BetaEntropy",
      "title": "Reduced-bias beta entropy of a metacommunity",
      "topics": [
        "BetaEntropy"
      ]
    },
    {
      "page": "ChaoPD",
      "title": "Phylogenetic Diversity of a Community",
      "topics": [
        "ChaoPD"
      ]
    },
    {
      "page": "CommunityProfile",
      "title": "Diversity or Entropy Profile of a community",
      "topics": [
        "as.CommunityProfile",
        "autoplot.CommunityProfile",
        "CEnvelope",
        "CommunityProfile",
        "is.CommunityProfile",
        "plot.CommunityProfile"
      ]
    },
    {
      "page": "Coverage",
      "title": "Sample coverage of a community",
      "topics": [
        "Coverage",
        "Coverage2Size"
      ]
    },
    {
      "page": "Diversity",
      "title": "Hill number of a community",
      "topics": [
        "bcDiversity",
        "Diversity",
        "Diversity.AbdVector",
        "Diversity.integer",
        "Diversity.numeric",
        "Diversity.ProbaVector"
      ]
    },
    {
      "page": "DivEst",
      "title": "Diversity Estimation of a metacommunity",
      "topics": [
        "autoplot.DivEst",
        "DivEst",
        "is.DivEst",
        "plot.DivEst",
        "summary.DivEst"
      ]
    },
    {
      "page": "DivPart",
      "title": "Diversity Partition of a metacommunity",
      "topics": [
        "autoplot.DivPart",
        "DivPart",
        "is.DivPart",
        "plot.DivPart",
        "summary.DivPart"
      ]
    },
    {
      "page": "DivProfile",
      "title": "Diversity Profile of a metacommunity",
      "topics": [
        "autoplot.DivProfile",
        "DivProfile",
        "is.DivProfile",
        "plot.DivProfile",
        "summary.DivProfile"
      ]
    },
    {
      "page": "Dqz",
      "title": "Similarity-based diversity of a community",
      "topics": [
        "bcDqz",
        "Dqz",
        "Dqz.AbdVector",
        "Dqz.integer",
        "Dqz.numeric",
        "Dqz.ProbaVector"
      ]
    },
    {
      "page": "EightSpAbundance",
      "title": "Abundances of 8 species to run examples.",
      "topics": [
        "EightSpAbundance"
      ]
    },
    {
      "page": "EightSpTree",
      "title": "Functional tree with 8 species.",
      "topics": [
        "EightSpTree"
      ]
    },
    {
      "page": "Enq",
      "title": "Grassberger's expectation of n^q",
      "topics": [
        "Enq"
      ]
    },
    {
      "page": "EntropyCI",
      "title": "Entropy of Monte-Carlo simulated communities",
      "topics": [
        "EntropyCI"
      ]
    },
    {
      "page": "expq",
      "title": "Exponential of order q",
      "topics": [
        "expq",
        "expq.CommunityProfile"
      ]
    },
    {
      "page": "GammaDiversity",
      "title": "Reduced-bias gamma diversity of a metacommunity",
      "topics": [
        "GammaDiversity"
      ]
    },
    {
      "page": "GammaEntropy",
      "title": "Reduced-bias gamma entropy of a metacommunity",
      "topics": [
        "GammaEntropy"
      ]
    },
    {
      "page": "GenSimpson",
      "title": "Generalized Simpson's Entropy and Diversity",
      "topics": [
        "bcGenSimpson",
        "bcGenSimpsonD",
        "GenSimpson",
        "GenSimpson.AbdVector",
        "GenSimpson.integer",
        "GenSimpson.numeric",
        "GenSimpson.ProbaVector",
        "GenSimpsonD",
        "GenSimpsonD.AbdVector",
        "GenSimpsonD.integer",
        "GenSimpsonD.numeric",
        "GenSimpsonD.ProbaVector"
      ]
    },
    {
      "page": "Hqz",
      "title": "Similarity-based entropy of a community",
      "topics": [
        "bcHqz",
        "Hqz",
        "Hqz.AbdVector",
        "Hqz.integer",
        "Hqz.numeric",
        "Hqz.ProbaVector"
      ]
    },
    {
      "page": "HqzBeta",
      "title": "Similarity-based beta entropy of a community",
      "topics": [
        "bcHqzBeta",
        "HqzBeta",
        "HqzBeta.AbdVector",
        "HqzBeta.integer",
        "HqzBeta.numeric",
        "HqzBeta.ProbaVector"
      ]
    },
    {
      "page": "Hurlbert",
      "title": "Hurlbert's Index and Explicit Diversity",
      "topics": [
        "bcHurlbert",
        "bcHurlbertD",
        "Hurlbert",
        "Hurlbert.AbdVector",
        "Hurlbert.integer",
        "Hurlbert.numeric",
        "Hurlbert.ProbaVector",
        "HurlbertD",
        "HurlbertD.AbdVector",
        "HurlbertD.integer",
        "HurlbertD.numeric",
        "HurlbertD.ProbaVector"
      ]
    },
    {
      "page": "KLq",
      "title": "Generalized Kullback-Leibler divergence",
      "topics": [
        "KLq"
      ]
    },
    {
      "page": "lnq",
      "title": "Logarithm of order q",
      "topics": [
        "lnq",
        "lnq.CommunityProfile"
      ]
    },
    {
      "page": "MergeMC",
      "title": "Manipulation of meta-communities",
      "topics": [
        "MergeC",
        "MergeMC",
        "ShuffleMC"
      ]
    },
    {
      "page": "MCdiversity",
      "title": "Meta-Community diversity class.",
      "topics": [
        "autoplot.MCdiversity",
        "is.MCdiversity",
        "MCdiversity",
        "plot.MCdiversity",
        "summary.MCdiversity"
      ]
    },
    {
      "page": "MCentropy",
      "title": "Meta-Community entropy class.",
      "topics": [
        "autoplot.MCentropy",
        "is.MCentropy",
        "MCentropy",
        "plot.MCentropy",
        "summary.MCentropy"
      ]
    },
    {
      "page": "MetaCommunity",
      "title": "Metacommunity class",
      "topics": [
        "is.MetaCommunity",
        "MetaCommunity",
        "plot.MetaCommunity",
        "summary.MetaCommunity"
      ]
    },
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