subset.calc_genoprob: Subsetting genotype probabilities

View source: R/subset_calc_genoprob.R

subset.calc_genoprobR Documentation

Subsetting genotype probabilities

Description

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

Usage

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

## S3 method for class 'calc_genoprob'
x[ind = NULL, chr = NULL]

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.

Value

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

Examples

grav2 <- read_cross2(system.file("extdata", "grav2.zip", package="qtl2"))

pr <- calc_genoprob(grav2)
# keep just individuals 1:5, chromosome 2
prsub <- pr[1:5,2]
# keep just chromosome 2
prsub2 <- pr[,2]

qtl2 documentation built on May 29, 2024, 11:46 a.m.