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Old 03-08-2013, 09:25 AM   #3
Paul Walker
Junior Member
 
Location: Minnesota

Join Date: Feb 2011
Posts: 3
Default paired t-test and differential gene testing

What I did was to use a 3rd party software called Gene Data Expressionist.
The GDE Genome Refiner module can be used with Tophat alignment bam or sam files. There are defined workflows for RNA-seq to do the transcript counting and generate FPKM normalized counts that can be used for statistical comparison testing.
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