Skip to contents

Format Data for Generalized Dissimilarity Modeling (GDM)

gdm_format.Rd

Format Data for Generalized Dissimilarity Modeling (GDM)

Usage

gdm_format(
  gendist,
  coords,
  env,
  scale_gendist = FALSE,
  geodist_type = "Euclidean",
  distPreds = NULL,
  dist_lyr = NULL,
  gdmPred = FALSE,
  gdmGen = FALSE
)

Arguments

gendist

matrix of genetic distances (must range between 0 and 1 or set scale_gendist = TRUE)

coords

dataframe with x (i.e., longitude) and y (i.e., latitude) coordinates; must be in this order

env

dataframe or raster object with environmental values for each coordinate; if not provided, it will be calculated based on coords/envlayers

scale_gendist

whether to scale genetic distance data from 0 to 1 (defaults to FALSE)

geodist_type

the type of geographic distance to be calculated; options are "Euclidean" (default) for direct distance, "topographic" for topographic distances, and "resistance" for resistance distances. Note: creation and plotting of the GDM raster is only possible for "Euclidean" distances

dist_lyr

DEM raster for calculating topographic distances or resistance raster for calculating resistance distances

gdmPred

whether to include the gdm formatted predictor data seperately (defaults to FALSE). This dataframe contains the site number, coordinates, and environmental values at each site

gdmGen

whether to include the gdm formatted genetic data seperately (defaults to FALSE). This dataframe contains the genetic distance matrix with an additional column for site number.

Value

either a gdmData object if gdmGen and gdmPred are FALSE or a list of gdm data objects

See also

Other GDM functions: gdm_coeffs(), gdm_df(), gdm_do_everything(), gdm_map(), gdm_plot_diss(), gdm_plot_isplines(), gdm_plot_vars(), gdm_run(), gdm_table(), gdm_var_sel(), scale01()