Question: Cuffdiff
0
gravatar for Irene Bassano
5.4 years ago by
United Kingdom
Irene Bassano90 wrote:
Hi, just few questions about cuffdiff if anyone can answer: 1.how can I load more than two sam/bam files?Galaxy gives spaceonly for two files 2.what to use as input: cufflinks, cuffcompare or cuffmerge? Thanks a lot!
rna-seq cuffmerge cufflinks • 587 views
ADD COMMENTlink modified 5.4 years ago by Jennifer Hillman Jackson23k • written 5.4 years ago by Irene Bassano90
0
gravatar for Jennifer Hillman Jackson
5.4 years ago by
United States
Jennifer Hillman Jackson23k wrote:
Hello Irene, Change the tool form for the option "Perform replicate analysis:" to be "Yes" (the default is "No"). Use two conditions (Groups). GTF output from any of these may be appropriate. Please see the tutorial on Galaxy main at: http://main.g2.bx.psu.edu/u/jeremy/p/galaxy-rna-seq-analysis-exercise FAQ: http://main.g2.bx.psu.edu/u/jeremy/p/transcriptome-analysis-faq And the "Common uses" protocols on the Cufflinks web site plus their new paper (also linked at this site, from side bar, as "Protocol"): http://cufflinks.cbcb.umd.edu/tutorial.html Best, Jen Galaxy team -- Jennifer Jackson http://galaxyproject.org
ADD COMMENTlink written 5.4 years ago by Jennifer Hillman Jackson23k
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