dot-ordinationPlots: ORDINATION PLOT SAVING FUNCTION

In CeresBarros/ToolsCB: Ceres's Useful R Functions

ORDINATION PLOT SAVING FUNCTION

Description

Calculates an ordination across two datasets prior to calculating two hypervolumes (one from each dataset)

Usage

.ordinationPlots(
  ordi,
  fscores,
  PEV,
  datatable,
  HVidvar,
  HVnames,
  ordination,
  outputs.dir,
  file.suffix
)

Arguments

ordi	the ordination object
fscores	factor scores
PEV	percent explained variance per PC
datatable	is a data.table contained the raw data for the two hypervolumes
HVidvar	the name or number of the column (in HVdata1/2) containing the ID of each hypervolume.
HVnames	character vector of hypervolume names
ordination	determines whether hypervolumes will be calculated on the raw data ("none") of on ordination factor scores (one of "PCA", "HillSmith", "dudi.mix"). Defaults to using a PCA.
outputs.dir	is the directory to store results
file.suffix	is a character string used as a suffix in file names

Value

NULL, just saves plots to a PDF

CeresBarros/ToolsCB documentation built on Aug. 23, 2024, 4:22 p.m.