write_genepop_zlr: Write Genepop file

In zakrobinson/RLDNe: A Convenient R Interface For NeEstimator V2.1

Description

This function writes a genepop file from hierfstat format data.

Usage

write_genepop_zlr(loci, pops, ind.ids, folder = getwd(), filename,
  missingVal = NA, ncode = 2, diploid = T)

Arguments

loci	Data frame of genotypes in hierfstat format.
pops	Vector of (equal length to rows of genotypes) designating populations for each individual
ind.ids	Vector of individual Identifiers ( must be equal in length to rows of genotypes)
folder	Directory for saving genepop output file
filename	File name for output file also the description at top of genepop file
missingVal	specifies the value of missing data in loci object. Defaults to NA.
ncode	2 x number of characters per allele (i.e. 22 = ncode = 2, since 1 character per allele going into the function * 2)
diploid	logical for whether the data is diploid or not

Value

returns a list of length 2. The output contains the filename of created genepop file and information for identifying populations following Genepop and NeEstimator Analysis.

Author(s)

Zak Robinson, Contact: zachary.robinson(at)umontana.com

Examples

data("wgp_example")

write_genepop_zlr(loci = wgp_example[,3:ncol(wgp_example)],pops = wgp_example$pop,
ind.ids = wgp_example$ind_id,folder = "",filename ="genepop_output.txt",missingVal = NA,
ncode = 2,diploid = TRUE)

zakrobinson/RLDNe documentation built on April 12, 2021, 1:50 p.m.