-- Apr 23 -- TopHat updated to v2.0.9: custom options and built in access to Broad-hosted genome files.
-- Apr 13 -- The software update is complete. Now running GenePattern 3.8.1. For more info see the release notes or check out a web tour of the new features. Please contact us at email@example.com if you have any questions.
-- Apr 08 -- P. falciparum, P. aeruginosa, and rice genomes now hosted in GenePattern for RNA-Seq tools
-- Apr 02 -- Cufflinks.cuffdiff beta: clarifies FPKM scaling options, adds a way to skip differential expression, and fixes some parameter defaults.
Note: there was a serious issue with the previous min.alignment.count default. You should re-run your analyses if you have concerns about your data.
Important messages: Blog post: Java 7 update 51 blocks GenePattern visualizers