processDataBCR {bnem} | R Documentation

## BCR perturbation reproduction

### Description

Produce the application data from the BCR paper of Pirkl, et al., 2016, Bioinformatics. Raw data is available at https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE68761

### Usage

    processDataBCR(path = "", combsign = FALSE)

### Arguments

`path` | path to the CEL.gz/Cel files
`combsign` | if TRUE includes all covariates in ComBat analysis to estimate batch effects.

### Value

list with the full foldchanges and epxression matrix, a reduced foldchange matrix and the design matrix for the computations

### Author(s)

Martin Pirkl

### Examples

    ## Not run:
    processDataBCR()

    ## End(Not run)
    data(bcr)

[Package bnem version 1.2.0 Index]