## Normalisation / Affymetrix SNP arrays

### Description

Preprocesses Affymetrix SNP array CEL-files to give expression estimates and call values for genes.

### Parameters

- None

### Details

Computes the genotype values using the SNPRMA and CRLMM methods.

100K and 500K SNP arrays can be analyzed. Currently, genome-wide arrays 5.0 or 6.0 are not supported.

### Output

A tab-delimited text file containing gene names and expression estimates. This file is suitable for all further analyses.

### References

This tool uses Bioconductor package oligo. You can cite the package as:

Benilton Carvalho, Henrik Bengtsson, Terence P Speed, and Rafael A Irizarry. Exploration, normalization, and genotype calls of high density oligonucleotide snp array data. Biostatistics, Dec 2006.