getCNVs: CNVs after performing calling with R-GADA

In isglobal-brge/R-GADA: Genome Alteration Detection Algorithm (GADA)

Description

This function provides the CNVs of each sample by chromosome after performing segmentation procedure using GADA.

Usage

getCNVs(x)

Arguments

x	an object of class 'parGADA' obtained after applying 'parBE' function

Value

This function returns an object of class 'cnvGR' which is a 'GRanges' object that contains all the segments detected as CNV gain or loss.

References

Pique-Regi R, Caceres A, Gonzalez JR. "R-Gada: a package for fast detection and visualization of copy number alterations on multiple samples". BMC Bioinformatics, 2010;11:380.

See Also

parSBL, setupParGADA, parBE

Examples

 ## Not run: 
  See the vignette
 
## End(Not run) 

isglobal-brge/R-GADA documentation built on May 24, 2019, 5:03 a.m.