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Old 07-28-2017, 10:50 AM   #1
gkuffel
Genomics Lab Mgr.
 
Location: Chicago

Join Date: Oct 2012
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Default Tools for Enrichment Analysis

Hi everyone,

I manage a NGS core and I am a Bioinformatician by training. I use my favorite tool DESeq2 for all of my differential expession analysis. Many users are asking for enrichment analysis. Can anyone recommend a tool or a R package that works well with DESeq2 data for enrichment/pathway analysis of RNA-Seq data?

Thanks so much.
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Old 07-28-2017, 04:09 PM   #2
bigmw
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RNA-Seq pathway or gene-set analysis workflow with GAGE/Pathview
https://bioconductor.org/packages/re...eqWorkflow.pdf

Seqanswer thread
http://seqanswers.com/forums/showthread.php?t=34679
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