estimateCN: Estimate copy number (CN) in genomic regions

In daewoooo/primatR: What the Package Does (TODO)

Estimate copy number (CN) in genomic regions

Description

This function calculates ratio between observed and expected number of reads in localized genomic regions as CN estimates.

Usage

estimateCN(frags, regions, zlim = 3.291)

Arguments

frags	A GRanges-class object that contains directional Strand-seq reads.
regions	A GRanges-class object containing regions defined by breakpoint boundaries.
zlim	The number of stdev that the deltaW must pass the peakTh (ensures only significantly higher peaks are considered).

Value

A GRanges-class object containing submitted regions with an extra metacolumn CN.estim.

Author(s)

David Porubsky

daewoooo/primatR documentation built on March 28, 2024, 6:41 a.m.