genind2diffs: genind2diffs function Generates a diffs matrix from a genind...

In JeffWeinell/misc.wrappers: Miscellaneous Wrapper Functions for Spatial Population Genomics

genind2diffs function Generates a diffs matrix from a genind object

Description

genind2diffs function

Generates a diffs matrix from a genind object

Usage

genind2diffs(
  genind.obj,
  ploidy = 2,
  include.indv.names = F,
  output.file = NULL
)

Arguments

genind.obj	Input genind object (see adegenet package for description of genind class). Non-biallelic sites are dropped if they exist.
ploidy	Integer indicating the ploidy of individuals
include.indv.names	If the output matrix should include the names of the individuals as rownames and column names. Default FALSE
output.file	Optional character string to save the result to a file.

Value

A list of length three with (1) a numeric matrix corresponding to the Diff matrix used for EEMS, (2) the number of individuals, (3) number of biallelic sites in genind.obj

JeffWeinell/misc.wrappers documentation built on Sept. 20, 2023, 12:42 p.m.