generalgcrma-package: GCRMA preprocessing of Affymetrix Exon arrays and other...

In jotsetung/generalgcrma: GCRMA background adjustment for Affymetrix Tiling, Exon and Gene ST microarrays.

Description

Affymetrix Tiling arrays or Exon arrays usually have no missmatch (MM) probes and have either custom CDF files or no CDF files at all. The gcrma package however requires that a CDF package and a probe package are available in order to perform the preprocessing. Although gcrma could be applied without taking MM probes into account a straight forward preprocessing with functions from the gcrma package is sometimes not possible. We have therefore developed a package that provides wrapper functions for the main background adjusting functions from the gcrma package in order to make GCRMA preprocessing and NSB background correction also available for generic input (e.g. performing only probe intensities and their nucleotide sequences).

Details

Package:	generalgcrma
Type:	Package
Version:	1.1.2
Date:	2012-09-2
License:	LGPL
LazyLoad:	yes

Author(s)

Julien Lelong, Johannes Rainer

Maintainer: Johannes Rainer <[e-mail]>

References

Rainer J, Lelong J, Bindreither D, Mantinger C, Ploner C, Geley S, Kofler R. (2012) Research resource: transcriptional response to glucocorticoids in childhood acute lymphoblastic leukemia. Mol Endocrinol. 2012 Jan;26(1):178-93.

http://bioinfo.i-med.ac.at

See Also

gcrma

jotsetung/generalgcrma documentation built on May 19, 2019, 9:41 p.m.