GenePattern

GenePattern is a freely available software package developed at the Broad Institute of MIT and Harvard for the analysis of genomic data. Designed to enable researchers to develop, capture, and reproduce genomic analysis methodologies, GenePattern was first released in 2004. It now has over 3500 registered users at over 500 commercial and non-profit organizations internationally.

Additional recommended knowledge

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GenePattern features include:

• regularly updated repository of computational analysis modules that support data preprocessing, gene expression analysis, proteomics, and Single nucleotide polymorphism (SNP) analysis
• pipelines that allow you to chain modules together to create analysis workflows
• tools to support easy creation and integration of new analysis modules
• versioning of modules and pipelines to ensure reproducible research
• web browser, application, and programmatic interfaces to make analysis modules and pipelines available to a broad range of users