get.chr.bins: Generates a GenomicRanges objact containing genomic bins...

In ccbiolab/svpluscnv: svpluscnv: analysis and visualization of complex structural variation data

Description

Generates a GenomicRanges objact containing genomic bins based on a given bin size. If a cnv (svcnvio) object is provided the chromosome limits will be obtaind from mapped regions, otherwise chromosome limits will be obtained from the database (D3GB)

Usage

get.chr.bins(cnv = NULL, genome.v = "hg19", window.size = 10, slide.size = 2)

Arguments

cnv	(S4) an object of class svcnvio containing data type 'cnv' initialized by validate.cnv
genome.v	(hg19 or hg38) reference genome version to generate genoic bins (ignored if cnv is not NULL)
window.size	(numeric) size in megabases to generate genomic bins
slide.size	(numeric) size in megabases of the sliding genomic window; slide.size must be <= 1

Value

an instance of the class 'chromo.regs' containing information about shattered regions

ccbiolab/svpluscnv documentation built on Sept. 9, 2020, 4:52 a.m.