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Your Favorite RNA-seq Analysis Workflow
Posted: Thursday, November 15, 2012 4:34 PM
Joined: 3/4/2011
Posts: 11

It is clear that there is no single best workflow to analyze RNA-seq data.

A custom pipeline needs to be developed for a lab's needs depending on the species, availability and quality of reference genome sequence/annotations, specific aims of the study such as alternative splicing or differential expression at gene level or isoform level, etc.

Can you share 'your favorite workflow' with a reasoning / justification for why this workflow is working well for your scenario?



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