Microarray analysis

TM4TM4 is a microarray softare suite including four major applications and a mySQL database. Open source, originally developed at TIGR.

Cluster and Treeview – An integrated pair of programs for analyzing and visualizing the results of complex microarray experiments. Both written by Michael Eisen.

Bioconductor Array WorkflowBioconductor includes extensive support for analysis of expression arrays, and well-developed support for exon, copy number, SNP, methylation, and other assays. Major workflows in Bioconductor include pre-processing, quality assessment, differential expression, clustering and classification, gene set enrichment analysis, and genetical genomics.

GEXCGEXC (Gene Expression Commons) provides absolute common reference by global-scale meta analysis of publicly available microarray data.

GenevestigatorGenevestigator is an innovative online platform enabling researchers to globally explore public and proprietary expression data for research and clinical applications.