qtl2 (version 0.32)

subset.calc_genoprob: Subsetting genotype probabilities

Description

Pull out a specified set of individuals and/or chromosomes from the results of calc_genoprob().

Usage

# S3 method for calc_genoprob
subset(x, ind = NULL, chr = NULL, ...)
# S3 method for calc_genoprob
[(x, ind = NULL, chr = NULL)

Value

An object of class "calc_genoprob", like the input, with the selected individuals and/or chromsomes; see calc_genoprob().

Arguments

x

Genotype probabilities as output from calc_genoprob().

ind

A vector of individuals: numeric indices, logical values, or character string IDs

chr

A vector of chromosomes: logical values, or character string IDs. Numbers are interpreted as character string IDs.

...

Ignored.

Examples

grav2 <- read_cross2(system.file("extdata", "grav2.zip", package="qtl2"))
grav2 <- grav2[1:8,c(1,2)]
pr <- calc_genoprob(grav2)
# keep just individuals 1:5, chromosome 2
prsub <- pr[1:5,2]
# keep just chromosome 2
prsub2 <- pr[,2]