filter_cnv: Filter Copy number variations

In grafab/gsrc: Genome Structure Rearrangement Calling in Genomes with High Synteny

Description

Short CNV stretches can be filtered out.

Usage

filter_cnv(dat, thresh = 5)

Arguments

dat	norm_data object.
thresh	Integer, lower threshold for filtering CNVs.

Value

norm_data object

Examples

## Not run: 
if(require(brassicaData)){
data("raw_napus", package = "brassicaData", envir = environment())
dat <- intens_theta(raw_napus)
dat <- remove_suffix(dat, "_Grn")
dat <- geno_baf_rratio(dat, delthresh = 11)
dat <- segm(dat)
dat <- cnv(dat, dup = 0.03, del = -0.06)
dat <- filter_cnv(dat)
}

## End(Not run)

grafab/gsrc documentation built on May 17, 2019, 8:18 a.m.