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MMRR function to do everything

mmrr_do_everything.Rd

MMRR function to do everything

Usage

mmrr_do_everything(
  gendist,
  coords,
  env,
  geo = TRUE,
  model = "full",
  geodist_type = "Euclidean",
  dist_lyr = NULL,
  nperm = 999,
  stdz = TRUE,
  quiet = FALSE,
  plot_type = "all"
)

Arguments

gendist

matrix of genetic distances

coords

dataframe with x and y coordinates

env

dataframe with environmental data or a Raster* type object from which environmental values for the coordinates can be extracted

geo

whether to include geographic, topographic, or resistance distance as an independent variable (defaults to TRUE)

model

whether to fit the model with all variables ("full") or to perform variable selection to determine the best set of variables ("best"); defaults to "full"

geodist_type

if geo = TRUE, the type of geographic distance to be calculated; options are "Euclidean" (default) for direct distance, "topographic" for topographic distances, and "resistance" for resistance distances

dist_lyr

if geodist_type = "topographic", DEM raster for calculating topographic distances or if geodist_type = "resistance", resistance raster for calculating resistance distances

nperm

number of permutations to be used in significance tests (default = 999)

stdz

if TRUE then matrices will be standardized (default = TRUE)

quiet

whether to operate quietly and suppress the output of tables and figures (defaults to FALSE)

plot_type

if quiet = FALSE, which plots to produce (options: (1) "vars" to plot single variable relationships, (2) "fitted" to plot the fitted relationship, (3) "cov" to plot covariances between the predictor variables, (4) "all" to produce all plots (default))

Value

list with final model results and regression coefficients

Details

The MMRR method is described here: Wang, I.J. (2013). Examining the full effects of landscape heterogeneity on spatial genetic variation: a multiple matrix regression approach for quantifying geographic and ecological isolation. Evolution 67(12):3403-3411. doi: https://doi.org/10.1111/evo.12134

See also

Other MMRR functions: MMRR(), mmrr_df(), mmrr_plot(), mmrr_run(), mmrr_table(), mmrr_var_sel(), unfold()