add_oncosnp_to_penncnv_probe: Add the OncoSNP information to the PennCNV probe data.

In tinyheero/oncosnputils: Post-processing of OncoSNP Results

Description

Each probe will have its LRR value shifted and assigned a rank (or multiple) according to the output of OncoSNP

Usage

add_oncosnp_to_penncnv_probe(cnvDf, qcDf, probeDf, ploidyConfig = 1L)

Arguments

cnvDf	The OncoSNP standard file (.cnvs) data.frame loaded using the loadOncosnpCnvFile() function.
qcDf	The OncoSNP quality control (.qc) data.frame loaded using the LoadOncosnpQcFile() function.
probeDf	The PennCNV probe data file data.frame loaded using the LoadPennCNVProbeData() function.
ploidyConfig	The ploidy configuration from OncoSNP that you want to to map the information to.

Value

A modified data.frame of the probeDf that contains extra columns for shifted LRR and ranks from OncoSNP

Examples

AddOncosnp2PennCNVProbe(..., ploidyConfig = 1)
AddOncosnp2PennCNVProbe(..., ploidyConfig = 2)

tinyheero/oncosnputils documentation built on May 31, 2019, 3:36 p.m.