Copynumber PipelineThe Copynumber Pipeline operates on Affymetrix SNP6 array data. It calls genotypes and relative copynumber levels.
A prerelease version of the paper is available here: You can run or download the software from the Broad GenePattern server (requires free GenePattern registration). Documentation detailing the pipeline inputs and outputs is also available at this link. http://genepattern.broadinstitute.org/gp/pages/index.jsf?lsid=CopyNumberInferencePipeline |