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Old 02-02-2015, 03:16 PM   #1
arkilis
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Default Any tool to review the maps statistics?

Hi all,

Anyone can sugguest one tool to give out statistics on the sam/bam files?
I tried the samtools flagstat to do this, but it only generate very limited information here.

It will be great to know which sequence has been aligned to which read.

Thanks,
Ben
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Old 02-02-2015, 03:36 PM   #2
GenoMax
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See #4 and 5 posts: http://seqanswers.com/forums/showthread.php?t=49935
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Old 02-02-2015, 03:42 PM   #3
arkilis
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Quote:
Originally Posted by GenoMax View Post

Qualimap gives out detailed mapping info but failed to generate things like which read has been mapped to which sequence.

Thanks a lot!

Last edited by arkilis; 02-02-2015 at 03:50 PM.
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