scanonevar.boot: scanonevar.boot

In rcorty/vqtl: Genome Scans to Accommodate and Target Genetic and Non-Genetic Effects on Trait Variance in Test Crosses

Description

scanonevar.boot conducts a nonparametric bootstrap of one chromosome to establish a confidence interval on any peaks

Usage

scanonevar.boot(sov, n.resamples, chr, qtl_type = c("mQTL", "vQTL",
  "mvQTL"), random.seed = 27599, n.cores = parallel::detectCores() - 2,
  silent = FALSE)

Arguments

sov	the scanonevar whose significance should be assessed empirically in an FWER-controlling method
n.resamples	the number of resamples
chr	which chromosome to focus on
qtl_type	which type of QTL did you detect and want a CI for? mQTL, vQTL, or mvQTL.
random.seed	value to start the random number generator at, for reproducibility
n.cores	number of cores to use for the permutations
silent	Should all messaging be suppressed?

Value

27599

Author(s)

Robert W. Corty [e-mail]

Examples

set.seed(27599)
test.cross <- qtl::sim.cross(map = qtl::sim.map(len = rep(20, 5), n.mar = 5), n.ind = 50)
sov <- scanonevar(cross = test.cross)

rcorty/vqtl documentation built on May 27, 2019, 3:04 a.m.