qualityMask {sesame} | R Documentation

## Mask beta values by design quality

### Description

Currently quality masking only supports three platforms

### Usage

    qualityMask(
      sdf,
      mask.use.manifest = TRUE,
      manifest = NULL,
      mask.use.tcga = FALSE
    )

### Arguments

`sdf` | a `SigDF` object
`mask.use.manifest` | use manifest to mask probes
`manifest` | the manifest to use, for custom arrays
`mask.use.tcga` | whether to use TCGA masking, only applies to HM450

### Value

a filtered `SigDF`

### Examples

    sesameDataCache("EPIC") # if not done yet
    sdf <- sesameDataGet('EPIC.1.SigDF')
    sum(sdf$mask)
    sum(qualityMask(sdf)$mask)

[Package sesame version 1.12.9 Index]