getAFTypeIbySumAlleles {sesame} | R Documentation

## Get allele frequency treating type I by summing alleles

### Description

Takes a `SigDF` 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 `SigDF`, then an numeric(0) is returned.

### Usage

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

### Arguments

`sdf` | `SigDF`
`known.ccs.only` | consider only known CCS probes

### Value

beta values

### Examples

    sesameDataCache("EPIC") # if not done yet
    sdf <- sesameDataGet('EPIC.1.SigDF')
    af <- getAFTypeIbySumAlleles(sdf)

[Package sesame version 1.12.9 Index]