parseGEOSignalABFile {sesame} | R Documentation

## Parse GEO signal-A/B File into a SigSet List

### Description

This function is meant to be a convenience function for parsing data from Signal_A and Signal_B file provided by GEO. In many cases, this function generates a "partial" SigSet due to lack of out-of-band signal and control probe measurement in those Signal_A/B files. The detection p-value is based on a fixed normal distribution rather than from negative control or OOB probes.

### Usage

    parseGEOSignalABFile(path, platform = "HM450", drop = TRUE,
      parallel = TRUE)

### Arguments

`path` | path to Signal-A/B file downlaoded from GEO. The file can remain gzipped.
`platform` | HM450, EPIC or HM27
`drop` | whether to reduce to SigSet when there is only one sample.
`parallel` | whether to use multiple cores.

### Value

a SigSetList or a SigSet

### Examples

    path = system.file(
        'extdata',
        'GSE36369_NonEBV_SignalA_SignalB_3samples_1k.txt.gz',
        package='sesame')
    ssets <- parseGEOSignalABFile(path)

[Package sesame version 1.2.0 Index]