{
  "_id": "6a0f69dfacfb0bcc41c5e034",
  "Package": "TAD",
  "Title": "Realize the Trait Abundance Distribution",
  "Version": "1.0.1",
  "Maintainer": "Raphaël Martin <raphael.martin@inrae.fr>",
  "Authors@R": "c(person(given = \"Nathan\",\nfamily = \"Rondeau\",\nemail = \"nathan.rondeau@inrae.fr\",\nrole = c(\"aut\")\n), person(given = \"Yoann\",\nfamily = \"Le Bagousse-Pinguet\",\nemail = \"yoann.pinguet@imbe.fr\",\nrole = c(\"aut\"),\ncomment = c(ORCID = \"0000-0002-5615-5541\")\n), person(given = \"Raphaël\",\nfamily = \"Martin\",\nemail = \"raphael.martin@inrae.fr\",\nrole = c(\"aut\",\"cre\"),\ncomment = c(ORCID = \"0000-0001-8778-7915\")\n), person(given = \"Lain\",\nfamily = \"Pavot\",\nemail = \"lain.pavot@inrae.fr\",\nrole = c(\"aut\")\n), person(given = \"Pierre\",\nfamily = \"Liancourt\",\nemail = \"pierre.liancourt@gmail.com\",\nrole = c(\"aut\"),\ncomment = c(ORCID = \"0000-0002-3109-8755\")\n), person(given = \"Nicolas\",\nfamily = \"Gross\",\nemail = \"nicolas.gross@inrae.fr\",\nrole = c(\"aut\"),\ncomment = c(ORCID = \"0000-0001-9730-3240\")\n), person(given = \"INRAe/UREP\",\nrole = c(\"cph\")))",
  "Description": "The “TAD” package compiled an analytical framework based\non an analysis of the shape of the trait abundance\ndistributions to better understand community assembly\nprocesses, and predict community dynamics under environmental\nchanges. This framework mobilized a study of the relationship\nbetween the moments describing the shape of the distributions:\nthe skewness and the kurtosis (SKR). The SKR allows the\nidentification of commonalities in the shape of trait\ndistributions across contrasting communities. Derived from the\nSKR, we developed mathematical parameters that summarise the\ncomplex pattern of distributions by assessing (i) the R², (ii)\nthe Y-intercept, (iii) the slope, (iv) the functional stability\nof community (TADstab), and, (v) the distance from specific\ndistribution families (i.e., the distance from the skew-uniform\nfamily a limit to the highest degree of evenness: TADeve).",
  "License": "BSD_3_clause + file LICENSE",
  "URL": "https://forge.inrae.fr/urep/data_processing/tad",
  "BugReports": "https://forge.inrae.fr/urep/data_processing/tad/-/issues",
  "Encoding": "UTF-8",
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  "Collate": "utils.R saving_and_loading_data.R graph.R tad.R data.R",
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  "LazyDataCompression": "bzip2",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-21 08:39:33 UTC",
    "User": "root"
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  "Author": "Nathan Rondeau [aut], Yoann Le Bagousse-Pinguet [aut] (ORCID:\n<https://orcid.org/0000-0002-5615-5541>), Raphaël Martin [aut,\ncre] (ORCID: <https://orcid.org/0000-0001-8778-7915>), Lain\nPavot [aut], Pierre Liancourt [aut] (ORCID:\n<https://orcid.org/0000-0002-3109-8755>), Nicolas Gross [aut]\n(ORCID: <https://orcid.org/0000-0001-9730-3240>), INRAe/UREP\n[cph]",
  "Repository": "https://cran.r-universe.dev",
  "Date/Publication": "2026-02-19 15:11:13 UTC",
  "RemoteUrl": "https://github.com/cran/TAD",
  "RemoteRef": "HEAD",
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  "MD5sum": "262d59aa9f6a29dc9fdc4300daece413",
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  "_created": "2026-05-21T08:39:33.000Z",
  "_published": "2026-05-21T20:23:59.717Z",
  "_distro": "noble",
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  "_commit": {
    "id": "79efedb79fa65466ab741991d88b5ac6dc24a70e",
    "author": "Raphaël Martin <raphael.martin@inrae.fr>",
    "committer": "cran-robot <csardi.gabor+cran@gmail.com>",
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  "_exports": [
    "CONSTANTS",
    "generate_random_matrix",
    "launch_analysis_tad",
    "load_abundance_dataframe",
    "load_stat_skr_param",
    "load_statistics_per_obs",
    "load_statistics_per_random",
    "load_weighted_moments",
    "moments_graph",
    "null_model_distribution_stats",
    "save_abundance_dataframe",
    "save_stat_skr_param",
    "save_statistics_per_obs",
    "save_statistics_per_random",
    "save_weighted_moments",
    "skr_graph",
    "skr_param_graph",
    "weighted_mvsk"
  ],
  "_datasets": [
    {
      "name": "AB",
      "title": "Example dataset containing some traits",
      "object": "AB",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Plot",
        "Year",
        "Treatment",
        "Bloc",
        "SP1",
        "SP3",
        "SP4",
        "SP5",
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        "SP60",
        "SP62",
        "SP63",
        "SP64",
        "SP65",
        "SP67",
        "SP68",
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        "SP70",
        "SP71",
        "SP72",
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        "SP76",
        "SP77",
        "SP78",
        "SP79",
        "SP80",
        "SP81",
        "SP82",
        "SP83",
        "SP84",
        "SP85",
        "SP86",
        "SP87",
        "SP88",
        "SP90",
        "SP91",
        "SP92",
        "SP93",
        "SP94",
        "SP95",
        "SP96",
        "SP97",
        "SP98",
        "SP99",
        "SP101",
        "SP102",
        "SP103",
        "SP104",
        "SP105",
        "SP106",
        "SP107",
        "SP108",
        "SP109",
        "SP110"
      ],
      "rows": 96,
      "table": true,
      "tojson": true
    },
    {
      "name": "abundance_dataframe",
      "title": "Example dataset of abundance_dataframe",
      "object": "abundance_dataframe",
      "class": [
        "data.frame"
      ],
      "fields": [
        "number",
        "index1",
        "index2",
        "index3",
        "index4",
        "index5",
        "index6",
        "index7",
        "index8",
        "index9",
        "index10",
        "index11",
        "index12",
        "index13",
        "index14",
        "index15",
        "index16",
        "index17",
        "index18",
        "index19",
        "index20",
        "index21",
        "index22",
        "index23",
        "index24",
        "index25",
        "index26",
        "index27",
        "index28",
        "index29",
        "index30",
        "index31",
        "index32",
        "index33",
        "index34",
        "index35",
        "index36",
        "index37",
        "index38",
        "index39",
        "index40",
        "index41",
        "index42",
        "index43",
        "index44",
        "index45",
        "index46",
        "index47",
        "index48",
        "index49",
        "index50",
        "index51",
        "index52",
        "index53",
        "index54",
        "index55",
        "index56",
        "index57",
        "index58",
        "index59",
        "index60",
        "index61",
        "index62",
        "index63",
        "index64",
        "index65",
        "index66",
        "index67",
        "index68",
        "index69",
        "index70",
        "index71",
        "index72",
        "index73",
        "index74",
        "index75",
        "index76",
        "index77",
        "index78",
        "index79",
        "index80",
        "index81",
        "index82",
        "index83",
        "index84",
        "index85",
        "index86",
        "index87",
        "index88",
        "index89",
        "index90",
        "index91",
        "index92",
        "index93",
        "index94",
        "index95",
        "index96",
        "index97",
        "index98"
      ],
      "rows": 2016,
      "table": true,
      "tojson": true
    },
    {
      "name": "filtered_abundances",
      "title": "Example dataset of filtred results just after abundances generation",
      "object": "filtered_abundances",
      "class": [
        "list"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "skr_ses_dataframe",
      "title": "Example dataset of skr_ses",
      "object": "skr_ses_dataframe",
      "class": [
        "data.frame"
      ],
      "fields": [
        "slope_ses",
        "slope_signi",
        "intercept_ses",
        "intercept_signi",
        "rsquare_ses",
        "rsquare_signi",
        "tad_stab_ses",
        "tad_stab_signi",
        "distance_to_family_ses",
        "distance_to_family_signi",
        "cv_distance_to_family_ses",
        "cv_distance_to_family_signi",
        "Treatment"
      ],
      "rows": 2,
      "table": true,
      "tojson": true
    },
    {
      "name": "stat_per_obs_dataframe",
      "title": "Example dataset of stat_per_obs_dataframe",
      "object": "stat_per_obs_dataframe",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Year",
        "Plot",
        "Treatment",
        "Bloc",
        "standardized_observedmean",
        "standardized_min_quantilemean",
        "standardized_max_quantilemean",
        "significancemean",
        "standardized_observedvariance",
        "standardized_min_quantilevariance",
        "standardized_max_quantilevariance",
        "significancevariance",
        "standardized_observedskewness",
        "standardized_min_quantileskewness",
        "standardized_max_quantileskewness",
        "significanceskewness",
        "standardized_observedkurtosis",
        "standardized_min_quantilekurtosis",
        "standardized_max_quantilekurtosis",
        "significancekurtosis"
      ],
      "rows": 96,
      "table": true,
      "tojson": true
    },
    {
      "name": "stat_per_rand_dataframe",
      "title": "Example dataset of stat_per_rand_dataframe",
      "object": "stat_per_rand_dataframe",
      "class": [
        "data.frame"
      ],
      "fields": [
        "number",
        "Treatment",
        "slope",
        "intercept",
        "rsquare",
        "tad_stab",
        "distance_to_family",
        "cv_distance_to_family"
      ],
      "rows": 42,
      "table": true,
      "tojson": true
    },
    {
      "name": "trait",
      "title": "Example dataset containing some traits",
      "object": "trait",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Species",
        "SLA"
      ],
      "rows": 98,
      "table": true,
      "tojson": true
    },
    {
      "name": "weighted_moments_dataframe",
      "title": "Example dataset of weighted_moments_dataframe",
      "object": "weighted_moments_dataframe",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Year",
        "Plot",
        "Treatment",
        "Bloc",
        "number",
        "mean",
        "variance",
        "skewness",
        "kurtosis",
        "distance_law"
      ],
      "rows": 2016,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "CONSTANTS",
      "title": "The CONSTANTS constant",
      "topics": [
        "CONSTANTS"
      ]
    },
    {
      "page": "generate_random_matrix",
      "title": "Generate random matrix",
      "concept": [
        "tad"
      ],
      "topics": [
        "generate_random_matrix"
      ]
    },
    {
      "page": "launch_analysis_tad",
      "title": "Launch the analysis",
      "concept": [
        "tad"
      ],
      "topics": [
        "launch_analysis_tad"
      ]
    },
    {
      "page": "load_abundance_dataframe",
      "title": "load_abundance_dataframe",
      "topics": [
        "load_abundance_dataframe"
      ]
    },
    {
      "page": "load_stat_skr_param",
      "title": "load_stat_skr_param",
      "topics": [
        "load_stat_skr_param"
      ]
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      "page": "load_statistics_per_obs",
      "title": "load_statistics_per_obs",
      "topics": [
        "load_statistics_per_obs"
      ]
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    {
      "page": "load_statistics_per_random",
      "title": "load_statistics_per_random",
      "topics": [
        "load_statistics_per_random"
      ]
    },
    {
      "page": "load_weighted_moments",
      "title": "load_weighted_moments",
      "topics": [
        "load_weighted_moments"
      ]
    },
    {
      "page": "moments_graph",
      "title": "moments_graph",
      "topics": [
        "moments_graph"
      ]
    },
    {
      "page": "null_model_distribution_stats",
      "title": "Compare a value to random values",
      "concept": [
        "Statistics"
      ],
      "topics": [
        "null_model_distribution_stats"
      ]
    },
    {
      "page": "save_abundance_dataframe",
      "title": "save_abundance_dataframe",
      "topics": [
        "save_abundance_dataframe"
      ]
    },
    {
      "page": "save_stat_skr_param",
      "title": "save_stat_skr_param",
      "topics": [
        "save_stat_skr_param"
      ]
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      "page": "save_statistics_per_obs",
      "title": "save_statistics_per_obs",
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        "save_statistics_per_obs"
      ]
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      "topics": [
        "save_statistics_per_random"
      ]
    },
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      "page": "save_weighted_moments",
      "title": "save_weighted_moments",
      "topics": [
        "save_weighted_moments"
      ]
    },
    {
      "page": "skr_graph",
      "title": "skr_graph",
      "topics": [
        "skr_graph"
      ]
    },
    {
      "page": "skr_param_graph",
      "title": "skr_param_graph",
      "topics": [
        "skr_param_graph"
      ]
    },
    {
      "page": "weighted_mvsk",
      "title": "Compute the weighted mean, variance, skewness and kurtosis",
      "concept": [
        "Statistics"
      ],
      "topics": [
        "weighted_mvsk"
      ]
    }
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    "future",
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      "filename": "output-different-formats.html",
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        "Get CSV outputs",
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      ],
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    {
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