I made some changes to the cufflinks and tophat wrapper to pull gtf files from an indexed loc file as opposed to from history. The diff's are attached. I made it an optional feature. Please let me know if this makes its way into galaxy-central.
Best, Ilya Ilya Chorny Ph.D. Bioinformatics Scientist I Illumina, Inc. 9885 Towne Centre Drive San Diego, CA 92121 Work: 858.202.4582 Email: icho...@illumina.com<mailto:icho...@illumina.com> Website: www.illumina.com<http://www.illumina.com>
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