read_eigenstrat: Read genotype data from _EIGENSTRAT_ files

In uqrmaie1/admixtools: Inferring demographic history from genetic data

Read genotype data from EIGENSTRAT files

Description

Read genotype data from EIGENSTRAT files

Usage

read_eigenstrat(
  pref,
  inds = NULL,
  pops = NULL,
  first = 1,
  last = Inf,
  transpose = FALSE,
  verbose = TRUE
)

Arguments

pref	Prefix of the packedancestrymap files
inds	Individuals for which data should be read. Defaults to all individuals
pops	Populations for which data should be read. Cannot be provided together with 'inds'
first	Index of first SNP to read
last	Index of last SNP to read
transpose	Transpose genotype matrix (default is snps x individuals)
verbose	Print progress updates

Value

A list with the genotype data matrix, the .ind file, and the .snp file

Examples

## Not run: 
samples = c('Ind1', 'Ind2', 'Ind3')
geno = read_packedancestrymap(prefix, samples)

## End(Not run)

uqrmaie1/admixtools documentation built on Nov. 3, 2024, 12:56 a.m.