Re: [Samtools-help] MD tag

[<cav...@ms...>]

Thanks Marcel. I'll be checking out both tonight.

Brad

Quoting Marcel Martin <mar...@tu...>:

> On Sunday 24. October 2010 21:02:34 cav...@ms... wrote:
>> Forgot to ask this with my last message. Is there a script/program
>> available to get the genomic positions of any differences contained in MD
>> tags? How about adding in the genomic base(s) and the read base(s) of the
>> differences?
>
> There is a parse_md function in the cross-mapping correction software by
> Michiel de Hoon et al., which you can download here:
> http://genome.gsc.riken.jp/osc/english/dataresource/
>
> If you haven't done so, you should also have a look at pysam:
> http://pysam.googlecode.com/
>
> Marcel