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-   -   How to extract unmapped reference sequence from BAM/SAM file.? (http://seqanswers.com/forums/showthread.php?t=28314)

Pinal 03-12-2013 02:06 AM

How to extract unmapped reference sequence from BAM/SAM file.?
 
How to extract unmapped region from reference sequence from SAM/BAM file.?

SylvainL 03-12-2013 05:55 AM

Hi,

you can use the function coverageBed included in the bedtools suite and then, (for example using the Rpackage Rsamtools), it is really easy to select the uncovered region of your reference and extract the corresponding sequence...

jfmediatico 03-06-2014 12:40 PM

Hello,

Does anybody know any other way to extract unmapped regions of the reference sequence from a BAM/SAM/ACE file??


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