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Old 12-08-2011, 07:02 AM   #1
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Default Galaxy Bowtie alignment stats report


Does anyone know how to get alignment stats from Bowtie on Galaxy? I would like to know what percentage of total reads from my dataset is aligned.

I know if you run Bowtie using the command line, it gives you the report. However, I could not find percent alignment on Galaxy.

Thanks in advance for the help!

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Old 12-08-2011, 11:57 AM   #2
Location: Oregon

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A quick search of the Galaxy mailing list archives ( did not yield an answer for me.

Try posting the question to the galaxy-user list. Subscribe at
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