oncoprint.cbio: oncoprint.cbio

In TRONCO: TRONCO, an R package for TRanslational ONCOlogy

Description

export input for cbio visualization at http://www.cbioportal.org/public-portal/oncoprinter.jsp

Usage

oncoprint.cbio(
  x,
  file = "oncoprint-cbio.txt",
  hom.del = "Homozygous Loss",
  het.loss = "Heterozygous Loss",
  gain = "Low-level Gain",
  amp = "High-level Gain"
)

Arguments

x	A TRONCO compliant dataset.
file	name of the file where to save the output
hom.del	type of Homozygous Deletion
het.loss	type of Heterozygous Loss
gain	type of Gain
amp	type of Amplification

Value

A file containing instruction for the CBio visualization Tool

Examples

data(crc_gistic)
gistic = import.GISTIC(crc_gistic)
oncoprint.cbio(gistic)

TRONCO documentation built on Nov. 8, 2020, 5:51 p.m.