getLocus: Return genotype data for specified loci

In douglasgscofield/readGenalex: Read, Write, Manipulate and Convert GenAlEx-Format Genotype Files

Description

Return genotype data for specified loci in an object of class 'data.frame', optionally restricted to samples from specific populations.

Usage

## S3 method for class 'genalex'
getLocus(x, locus, pop = NULL, ...)

Arguments

x	An annotated data frame of class genalex
locus	The names of one or more loci found in x
pop	If supplied, return only data for samples from the specified populations
...	Additional arguments, currently ignored

Value

An object of class 'data.frame' containing genotype data from x for loci specified in code, optionally restricted to samples from populations specified in pop.

Author(s)

Douglas G. Scofield

Examples

data(Qagr_pericarp_genotypes)
nm <- attr(Qagr_pericarp_genotypes, "locus.names")
# get the first locus
loc1 <- getLocus(Qagr_pericarp_genotypes, nm[1])
# get the second locus of the second population
po <- attr(Qagr_pericarp_genotypes, "pop.labels")
loc2.pop2 <- getLocus(Qagr_pericarp_genotypes, nm[2], po[2])

douglasgscofield/readGenalex documentation built on May 15, 2019, 10:43 a.m.