Hello, The problem is most likely with the SAM files and sorting. Please see: "Why won't my SAM dataset work with Cufflinks?" http://main.g2.bx.psu.edu/u/jeremy/p/transcriptome-analysis-faq#faq2
Best, Jen Galaxy team On 9/26/12 12:54 PM, Kenneth Auerbach wrote:
Hi, I'm also getting these error when I run cuffmerge. It was run without a reference so it shouldn't have anything to do with the reference. Can you please tell me how to fix this? Thank you.
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