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Old 04-01-2011, 10:45 PM   #1
elisadouzi
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Default how to use samtool to see the genome mapped

I'm a new one. Just learn bwa and samtools.
samtools flagstat only show how many reads been mapped to genome. How can I see how many nucleotide sof the reference genome been mapped?

Thanks!
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Old 04-01-2011, 10:51 PM   #2
Chipper
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samtools pileup
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Old 04-01-2011, 10:58 PM   #3
elisadouzi
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Thanks a lot!
Quote:
Originally Posted by Chipper View Post
samtools pileup

Last edited by elisadouzi; 04-06-2011 at 03:31 PM.
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