jamescasbon/PyVCF — comment on commit ba52427d44945cf8cf24725eb706c14c2596c456
File:  line 0
By jamescasbon:

On Thu, Jan 26, 2012 at 2:36 PM, Martijn Vermaat <
reply@reply.github.com
> wrote:

>
> Seems like you made really good progress on the project by the way, very
> useful!

Thanks :)

I've got the API docs up now at read the docs: http://pyvcf.rtfd.org/

Performance is still an issue. I think this is because it is > O(n^3)
because we have samples * rows * elements in cell * number of variants at
site.

My biggest concern is that there should be an option to parse bcf.
Otherwise, all this effort could be in vain. This might mean tighter
integration with pysam.