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Forum: Bioinformatics 11-30-2011, 08:08 AM
Replies: 1
Views: 2,953
Posted By hlwright
Just to let everyone know I have had a pm from...

Just to let everyone know I have had a pm from Cole Trapnell and my problem is being caused by a bug in the current version of Cufflinks.

This option corrects the RPKM values:
--max-bundle-frags...
Forum: Bioinformatics 11-30-2011, 01:30 AM
Replies: 1
Views: 2,953
Posted By hlwright
Cufflinks v 1.2.0 high number of RPKM 0

I have three SOLiD human RNA-Seq libraries which I am analysing using cuffdiff. The libraries have a large number of reads which MAY be pcr duplicates (~90%), but as they are single-end reads I have...
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