[Useq-users] USeq_8.3.5 release and changes to RNASeq apps

[David N. <Dav...@hc...>]

Hello Folks,

I've depreciated the OverdispersedRegionScanSeqs and MultipleConditionRNASeq apps and replaced them with a 3X faster (no Picard lookup) , more accurate, better diff splice junction detection app called DefinedRegionDifferentialSeq.  It still wraps DESeq but calculates the log2Ratio using DESeqs variance corrected counts instead of total count scaling. It works with paired and multiple condition RNASeq data. I've also incorporated this into the RNASeq wrapper app so give these new ones a try.

You can download USeq_8.3.5 from Sourceforge.

-cheers, D

--
David Austin Nix, PhD
Huntsman Cancer Institute
Dept. OncSci University of Utah
Bioinformatics Shared Resource
HCI 3165 (801) 587-4611
dav...@hc...