getAFTypeIbySumAlleles {sesame}R Documentation

Get allele frequency treating type I by summing alleles

Description

Takes a SigSet as input and returns a numeric vector containing extra allele frequencies based on Color-Channel-Switching (CCS) probes. If no CCS probes exist in the SigSet, then an numeric(0) is returned.

Usage

getAFTypeIbySumAlleles(sset, known.ccs.only = TRUE)

Arguments

sset

SigSet

known.ccs.only

consider only known CCS probes

Value

beta values

Examples

sesameDataCache("EPIC") # if not done yet
sset <- sesameDataGet('EPIC.1.LNCaP')$sset
betas <- getAFTypeIbySumAlleles(sset)

[Package sesame version 1.8.10 Index]