abs_obtain: Obtain absolute copy number and optinal multiplicity (if SNV...

In ShixiangWang/absCopyNumber: Tumor Purity, Ploidy and Absolute Copy Number Estimation

Description

According to the user specified rank value, this function retrieve corresponding purity and ploidy solution pair, then compute absolute copy number, optional muliplicity.

Usage

abs_obtain(object, rank = 1, samples = NULL, onlyCN = FALSE,
  verbose = FALSE)

Arguments

object	a absCopyNumber object after absCopyNumber calling
rank	integer, rank value of solution, i.e. estimation slot.
samples	character vector, use if you wanna just get solution for specified samples.
onlyCN	if TRUE, just get absolute copy number result (a data.table), otherwise return a list include both absolute copy number and snv data with multiplicity.
verbose	if TRUE, print extra information.

Value

a list or a data.table, details see onlyCN option.

Author(s)

Shixiang Wang <[e-mail]>

ShixiangWang/absCopyNumber documentation built on May 28, 2019, 5:42 p.m.