[BioC] doesn\'t appear to be a valid BAM file
James W. MacDonald
jmacdon at uw.edu
Tue Oct 16 19:43:14 CEST 2012
On 10/16/2012 1:36 PM, Michael [guest] wrote:
> First of all sorry for posting about cufflinks here...
As you already know, this isn't the right list. On the cufflinks website
there is this:
Questions about Cufflinks should be sent to *tophat.cufflinks at gmail.com*
<mailto:tophat.cufflinks at gmail.com>. Please do not email technical
questions to Cufflinks contributors directly.
Which is probably your best bet. Alternatively you could try seqanswers.com
> This is what I get when trying to run cuffdiff (cufflinks 2.0) with bam from tophat 1.4.1 using command is for diff analysis without trans. discovery
> 'repA2.bam doesn't appear to be a valid BAM file'
> cuffdiff genes.gtf rep1.bam,rep2.bam \ repA2.bam,repA2.bam
> thanks in advance :)
> -- output of sessionInfo():
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James W. MacDonald, M.S.
University of Washington
Environmental and Occupational Health Sciences
4225 Roosevelt Way NE, # 100
Seattle WA 98105-6099
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