process_celfiles: Processing CEL files

In greenelab/ADAGEpath: ADAGE-based Signature Analysis

Processing CEL files

Description

Processes microarray data in CEL format. Only CEL files measured on the "Pae_G1a" platform will be processed. If using reference, the quantile normalization of probes is based on a reference quantile distribution.

Usage

process_celfiles(cel_folder, use_ref = TRUE, quantile_ref)

Arguments

cel_folder	file path to the folder storing CEL files.
use_ref	a logical value indicating whether the probe normalization should be done using a reference quantile distribution (default: TRUE).
quantile_ref	a vector storing the reference quantile distribution

Value

a data.frame containing normalized gene expression values with geneID in the first column and then each CEL file in one column.

greenelab/ADAGEpath documentation built on May 25, 2022, 7:11 a.m.