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Old 06-11-2012, 12:24 PM   #1
tyxer
Junior Member
 
Location: boston

Join Date: Jan 2011
Posts: 7
Default 'read' bam file directly

Hi, there:

I am working on quality statistics on aligned reads of sequencing data.
As all know, bam is the binary format that people can not really 'read' it by lines.
As a result, I have to transform bam file into sam file, which is time and space consuming.
I am wondering are there any tools or libraries by which I can directly work on the bam file (not only for statistics purpose)?
I know there are tools can directly make use of bam files, such as bamtools. But the function of it is not powerful enough for me.
Anyone knows how tools like bamtools make use bam files computationally?

Thank you so much

Yuxiang
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