Software


CrossChip (www.crosschip.org)

This tool is for integrating data from multiple generations of Affymetrix GeneChips. Matching probes based on Affymetrix "best-match" is inadequate for most analyses. This tool allows the user to derive a list of similar probes based on the user-specified criteria on probe sequence similarity and the minimum number of probe pairs needed for each probe set.

sigPathway (for finding significant pathways from microarray data)

For the R package, please see the Supplementary Material page for the Tian et al article (Proc Natl Acad Sci, 2005).