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  "Title": "Fitting and Assessing Neighborhood Models of the Effect of\nInterspecific Competition on the Growth of Trees",
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  "Authors@R": "c(\nperson(given = \"Albert Y.\", family = \"Kim\", email = \"albert.ys.kim@gmail.com\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0001-7824-306X\")),\nperson(given = \"David\", family = \"Allen\", email = \"dallen@middlebury.edu\", role = \"aut\", comment = c(ORCID = \"0000-0002-0712-9603\")),\nperson(given = \"Simon\", family = \"Couch\", email = \"simonpatrickcouch@gmail.com\", role = \"aut\", comment = c(ORCID = \"0000-0001-5676-5107\"))\n)",
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  "Description": "Code for fitting and assessing models for the growth of\ntrees. In particular for the Bayesian neighborhood competition\nlinear regression model of Allen (2020): methods for model\nfitting and generating fitted/predicted values, evaluating the\neffect of competitor species identity using permutation tests,\nand evaluating model performance using spatial\ncross-validation.",
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  "Date/Publication": "2026-08-27 02:04:32 UTC",
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    "run_cv",
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      "object": "blocks_ex",
      "class": [
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        "data.frame"
      ],
      "fields": [
        "foldID",
        "folds",
        "blocks"
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      "table": false,
      "tojson": true
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      "title": "Example input census data for package use",
      "object": "census_1_ex",
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        "data.frame"
      ],
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      "table": true,
      "tojson": true
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      "object": "census_2_ex",
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        "data.frame"
      ],
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        "date",
        "codes",
        "dbh"
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      "rows": 11,
      "table": true,
      "tojson": true
    },
    {
      "name": "census_2008_bw",
      "title": "Michigan Big Woods research plot data",
      "object": "census_2008_bw",
      "class": [
        "tbl_df",
        "tbl",
        "data.frame"
      ],
      "fields": [
        "treeID",
        "stemID",
        "sp",
        "gx",
        "gy",
        "dbh",
        "date",
        "codes"
      ],
      "rows": 27193,
      "table": true,
      "tojson": true
    },
    {
      "name": "census_2014_bw",
      "title": "Michigan Big Woods research plot data",
      "object": "census_2014_bw",
      "class": [
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        "tbl",
        "data.frame"
      ],
      "fields": [
        "treeID",
        "stemID",
        "sp",
        "gx",
        "gy",
        "dbh",
        "date",
        "codes"
      ],
      "rows": 48371,
      "table": true,
      "tojson": true
    },
    {
      "name": "comp_bayes_lm_ex",
      "title": "Example bayesian competition model fit",
      "object": "comp_bayes_lm_ex",
      "class": [
        "comp_bayes_lm",
        "list"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "focal_vs_comp_ex",
      "title": "Example focal versus comp data frame",
      "object": "focal_vs_comp_ex",
      "class": [
        "tbl_df",
        "tbl",
        "data.frame"
      ],
      "fields": [
        "focal_ID",
        "focal_sp",
        "dbh",
        "foldID",
        "geometry",
        "growth",
        "comp"
      ],
      "rows": 6,
      "table": false,
      "tojson": true
    },
    {
      "name": "growth_ex",
      "title": "Example growth data frame for small example",
      "object": "growth_ex",
      "class": [
        "sf",
        "tbl_df",
        "tbl",
        "data.frame"
      ],
      "fields": [
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        "codes1",
        "dbh1",
        "dbh2",
        "codes2",
        "growth",
        "geometry"
      ],
      "rows": 10,
      "table": true,
      "tojson": true
    },
    {
      "name": "growth_spatial_ex",
      "title": "Example growth data frame with spatial data for small example",
      "object": "growth_spatial_ex",
      "class": [
        "sf",
        "tbl_df",
        "tbl",
        "data.frame"
      ],
      "fields": [
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        "codes1",
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        "growth",
        "geometry",
        "buffer",
        "foldID"
      ],
      "rows": 10,
      "table": true,
      "tojson": true
    },
    {
      "name": "growth_toy",
      "title": "Example input data for 'create_focal_vs_comp()'",
      "object": "growth_toy",
      "class": [
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        "tbl_df",
        "tbl",
        "data.frame"
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        "codes2",
        "growth",
        "geometry",
        "buffer",
        "foldID"
      ],
      "rows": 5,
      "table": true,
      "tojson": true
    },
    {
      "name": "species_bw",
      "title": "Phylogenic groupings and trait based clustering of various tree species",
      "object": "species_bw",
      "class": [
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        "tbl",
        "data.frame"
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      "fields": [
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        "genus",
        "species",
        "latin",
        "family",
        "trait_group"
      ],
      "rows": 46,
      "table": true,
      "tojson": true
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    {
      "name": "study_region_bw",
      "title": "Bigwoods forest study region boundary",
      "object": "study_region_bw",
      "class": [
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        "data.frame"
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      "fields": [
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        "geometry"
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      "rows": 1,
      "table": false,
      "tojson": true
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    {
      "name": "study_region_ex",
      "title": "Study region for example data",
      "object": "study_region_ex",
      "class": [
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        "data.frame"
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      "fields": [
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        "geometry"
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      "rows": 1,
      "table": false,
      "tojson": true
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  "_help": [
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      "page": "add_buffer_variable",
      "title": "Identify trees in the buffer region",
      "concept": [
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      ],
      "topics": [
        "add_buffer_variable"
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    },
    {
      "page": "autoplot.comp_bayes_lm",
      "title": "Plot Bayesian model parameters",
      "topics": [
        "autoplot.comp_bayes_lm"
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    },
    {
      "page": "blocks_ex",
      "title": "Example cross validation grid",
      "concept": [
        "example data objects"
      ],
      "topics": [
        "blocks_ex"
      ]
    },
    {
      "page": "census_1_ex",
      "title": "Example input census data for package use",
      "concept": [
        "example data objects"
      ],
      "topics": [
        "census_1_ex"
      ]
    },
    {
      "page": "census_2_ex",
      "title": "Example input census data for package use",
      "concept": [
        "example data objects"
      ],
      "topics": [
        "census_2_ex"
      ]
    },
    {
      "page": "census_2008_bw",
      "title": "Michigan Big Woods research plot data",
      "concept": [
        "Big Woods data",
        "example data objects"
      ],
      "topics": [
        "census_2008_bw"
      ]
    },
    {
      "page": "census_2014_bw",
      "title": "Michigan Big Woods research plot data",
      "concept": [
        "Big Woods data",
        "example data objects"
      ],
      "topics": [
        "census_2014_bw"
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    },
    {
      "page": "comp_bayes_lm",
      "title": "Fit Bayesian competition model",
      "concept": [
        "modeling functions"
      ],
      "topics": [
        "comp_bayes_lm"
      ]
    },
    {
      "page": "comp_bayes_lm_ex",
      "title": "Example bayesian competition model fit",
      "concept": [
        "example data objects"
      ],
      "topics": [
        "comp_bayes_lm_ex"
      ]
    },
    {
      "page": "compute_buffer_region",
      "title": "Compute buffer to a region.",
      "concept": [
        "spatial functions"
      ],
      "topics": [
        "compute_buffer_region"
      ]
    },
    {
      "page": "compute_growth",
      "title": "Compute growth of trees",
      "concept": [
        "data processing functions"
      ],
      "topics": [
        "compute_growth"
      ]
    },
    {
      "page": "create_bayes_lm_data",
      "title": "Create input data frame for Bayesian regression",
      "concept": [
        "data processing functions",
        "modeling functions"
      ],
      "topics": [
        "create_bayes_lm_data"
      ]
    },
    {
      "page": "create_focal_vs_comp",
      "title": "Create focal versus competitor trees data frame",
      "concept": [
        "data processing functions"
      ],
      "topics": [
        "create_focal_vs_comp"
      ]
    },
    {
      "page": "focal_vs_comp_distance",
      "title": "Return all pairwise distances between two data frames of trees",
      "concept": [
        "spatial functions"
      ],
      "topics": [
        "focal_vs_comp_distance"
      ]
    },
    {
      "page": "focal_vs_comp_ex",
      "title": "Example focal versus comp data frame",
      "concept": [
        "example data objects"
      ],
      "topics": [
        "focal_vs_comp_ex"
      ]
    },
    {
      "page": "forestecology",
      "title": "'forestecology' package",
      "topics": [
        "forestecology-package",
        "forestecology"
      ]
    },
    {
      "page": "growth_ex",
      "title": "Example growth data frame for small example",
      "concept": [
        "example data objects"
      ],
      "topics": [
        "growth_ex"
      ]
    },
    {
      "page": "growth_spatial_ex",
      "title": "Example growth data frame with spatial data for small example",
      "concept": [
        "example data objects"
      ],
      "topics": [
        "growth_spatial_ex"
      ]
    },
    {
      "page": "growth_toy",
      "title": "Example input data for 'create_focal_vs_comp()'",
      "concept": [
        "example data objects"
      ],
      "topics": [
        "growth_toy"
      ]
    },
    {
      "page": "predict.comp_bayes_lm",
      "title": "Make predictions based on fitted Bayesian model",
      "concept": [
        "modeling functions"
      ],
      "topics": [
        "predict.comp_bayes_lm"
      ]
    },
    {
      "page": "run_cv",
      "title": "Run the bayesian model with spatial cross validation",
      "concept": [
        "modeling functions"
      ],
      "topics": [
        "run_cv"
      ]
    },
    {
      "page": "species_bw",
      "title": "Phylogenic groupings and trait based clustering of various tree species",
      "concept": [
        "Big Woods data",
        "example data objects"
      ],
      "topics": [
        "species_bw"
      ]
    },
    {
      "page": "study_region_bw",
      "title": "Bigwoods forest study region boundary",
      "concept": [
        "Big Woods data",
        "example data objects"
      ],
      "topics": [
        "study_region_bw"
      ]
    },
    {
      "page": "study_region_ex",
      "title": "Study region for example data",
      "concept": [
        "example data objects"
      ],
      "topics": [
        "study_region_ex"
      ]
    }
  ],
  "_readme": "https://github.com/rudeboybert/forestecology/raw/HEAD/README.md",
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