Description Usage Arguments Value Examples
View source: R/subset_fst_genoprob.R
Pull out a specified set of individuals and/or chromosomes from
the results of fst_genoprob()
.
1 2 3 4 |
x |
Genotype probabilities as output from |
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. |
mar |
A vector of marker names as character string IDs. |
... |
Ignored. |
The input genotype probabilities, with the selected individuals and/or chromsomes.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 | library(qtl2)
grav2 <- read_cross2(system.file("extdata", "grav2.zip", package="qtl2"))
pr <- calc_genoprob(grav2)
dir <- tempdir()
fpr <- fst_genoprob(pr, "grav2", dir)
# keep just individuals 1:5, chromosome 2
prsub <- fpr[1:5,2]
# keep just chromosome 2
prsub2 <- fpr[,2]
# clean up: remove all the files we created
unlink(fst_files(fpr))
|
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