Question: Rna-Seq Analysis Withtout Reference Genome
gravatar for Alicia R. Pérez-Porro
6.2 years ago by
Alicia R. Pérez-Porro20 wrote:
Hi all, I'm about to start doing gene expression analysis but i don't have a reference genome. I got my sequences from Illumina and i did my assemblies with CLC bio. I was planning to use DESeq for the analysis but for that i need my gene expression count values. There is any tool in Galaxy that i can use for that? Thanks, Alicia. –– Alicia R. Pérez-Porro PhD student Giribet lab Department of Organismic and Evolutionary Biology MCZ labs Harvard University 26 Oxford St, Cambridge MA 02138 phone: +1 617-496-5308 fax: +1 617-495-5667
galaxy • 736 views
ADD COMMENTlink modified 6.1 years ago by Jennifer Hillman Jackson25k • written 6.2 years ago by Alicia R. Pérez-Porro20
gravatar for Jennifer Hillman Jackson
6.1 years ago by
United States
Jennifer Hillman Jackson25k wrote:
Hello Alicia, There are two tools in the main Galaxy Tool Shed ( that would likely be helpful. Read the input requirements for each to decide which is a better fit. Search for 'deseq' to find them: deseq_and_sam2counts deseq_hts To use these tools, a local or cloud instance will be needed. Help to get started is in these wikis: The best list to use for local/cloud support is the galaxy- Also sure to subscribe to the galaxy-announce mailing list and follow the Distribution News Briefs to stay updated: Best, Jen Galaxy team -- Jennifer Jackson
ADD COMMENTlink written 6.1 years ago by Jennifer Hillman Jackson25k
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