statsCNA-CNAclinicData-method: Quantify and quality check copy-number profiles.

In sdchandra/CNAclinic: A Software Suite for Shallow Sequencing Copy Number Analysis

Quantify and quality check copy-number profiles.

Description

Calculate the fraction of genome altered (FGA) and/or the median of the absolute values of all pairwise differences (MAPD) between adjacent genomic bin values.

Usage

## S4 method for signature 'CNAclinicData'
statsCNA(object, measure = c("FGA", "MAPD"),
  digits = 3)

Arguments

object	a CNAclinicData object containing copy number calls
measure	Either "FGA", "MAPD" or both

Value

a matrix containing the values for the chosen measure(s) for each sample

Examples

     ## Not run: 
      vignette("CNAclinic")
     
## End(Not run)

sdchandra/CNAclinic documentation built on Aug. 8, 2024, 4:08 p.m.