getBPnum: Get counts of brekpoints per 10Mb

In macintyrelab/CNpare: Comparing tumour copy number profiles

Get counts of brekpoints per 10Mb

Description

Helper function for extractCopynumberFeatures. Approach developed by Geoff Macintyre et al. 2018

Helper function for extractCopynumberFeatures. Approach developed by Geoff Macintyre et al. 2018

Usage

getBPnum(abs_profiles, chrlen)

getOscilation(abs_profiles, chrlen)

Arguments

abs_profiles	absolute copy-number profiles
chrlen	chromosome length

Value

Matrix with counts of break points per 10Mb per sample

Matrix with length of chains of oscilating copy numbers

Examples

profiles<-getProfiles(segcn=cells_segcn,
    samples=unique(cells_segcn$sample)[1:4])
osCN<-getOscilation(profiles,CNpare:::chrlen)

macintyrelab/CNpare documentation built on April 15, 2022, 4:46 a.m.