Question: Cuffdiff
0
Vevis, Christis • 30 wrote:
Hi,
I got confused while trying to perform Cuffdiff for my RNA sequencing
analysis. So I have five different samples which were sequenced. I
used tophat to create the bam files and cufflink to create the
assembled trancripts. Then I uded Cuffmerge to merge them in one file
and then I wanted to do Cuffdiff with that merged file. What shall I
choose for the ''SAM or BAM file of aligned RNA-Seq'' option? I have
the 5 options from the 5 tophat actions on my 5 samples. All I want in
the end is an excel table showing the number of hits from each sample
(and not necessary a comparison of them).
Regards
Kristis Vevis, PhD Student
Cell Biology
UCL Institute of Ophthalmology
11-43 Bath Street
London
EC1V 9EL, UK
020 7608 4067
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modified 6.0 years ago
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Jeremy Goecks • 2.2k
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written
6.0 years ago by
Vevis, Christis • 30
