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Old 04-01-2011, 12:03 PM   #1
ae_ucla
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Default unaligned reads of tophat

Does anyone know a way to see which reads from tophat are unaligned? I figured out how to do this in bowtie with the --un and --max options, but does someone have a way to do this in tophat?
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Old 04-07-2011, 10:06 AM   #2
RockChalkJayhawk
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Quote:
Originally Posted by ae_ucla View Post
Does anyone know a way to see which reads from tophat are unaligned? I figured out how to do this in bowtie with the --un and --max options, but does someone have a way to do this in tophat?
Your answer can be found here
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