svc.breaks: Transform structural variant (SVC) data.frame into a 'breaks'...

In gonzolgarcia/svcnvplus: Integrative analyses of CNV segmentation and SV variant calls

Description

Transform structural variant (SVC) data.frame into a 'breaks' object

Usage

svc.breaks(svc, low.cov = NULL)

Arguments

svc	(S4) an object of class svcnvio containing data type 'svc' validated by validate.svc
low.cov	(data.table) a data.table (chrom, start, end) indicating low coverage regions to exclude from the analysis

Value

an instance of the class 'breaks' containing breakpoint and breakpoint burden information

Examples

## Obtain breakpoints from SV calls data
svc <- validate.svc(svdat_lung_ccle)

svc.breaks(svc)

gonzolgarcia/svcnvplus documentation built on March 4, 2020, 6:02 p.m.