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Old 08-30-2017, 10:10 AM   #1
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Location: Iowa

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Default Program for clustering rna seq reads using protein database

I have an RNA Seq data that I have used to assemble a de novo transcriptome, however, I am having trouble clustering it down into a final set of putative transcripts. I have used the Corset pipeline to cluster it down to 160,000 "genes" right now but beyond that I am stuck.

I have two unpublished protein databases for close relatives of my model and I was wondering if anyone had any suggestions for programs to map my putative transcripts to and cluster them even more?
bohawk is offline   Reply With Quote

clustering, de novo, mapping reads, proteome, transcriptome

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