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Old 11-10-2010, 06:33 PM   #1
dingkai0564
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Location: lasvegas

Join Date: Nov 2010
Posts: 10
Default the tophat generate the bam file instead of sam files?

I have a question:

when i trying to use tophat (to alignment in order to generate the SAM file when can be loaded into the cufflinks.Why the output only gives me bam files in the default sub-directories? Is there any way to generate the SAM file? or i have used the wrong parameters? I am using tophat 1.1.0

Thanks!
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