Re: [Bio-bwa-help] BWA-MEM and MD tag

[Heng Li <lh...@sa...>]

I think I will add this feature. For now, you may sort the SAM and use samtools' calmd to generate this tag.

Heng

On Sep 26, 2013, at 11:05 AM, Andrea Calabria <and...@gm...> wrote:

> Dear all
> is there a way of getting the MD tag score using BWA MEM?
> Using the BWA backtrack this tag was really useful: I used this tag to understand possible mismatches in the first bases (based on the strand) of each mapped read. I would like to use the MD tag for this purpose in the BWA MEM version too, is it possible?
> Thank you in advance
> Andrea
> 
> 
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