[Biopython-dev] sff reader

Peter biopython at maubp.freeserve.co.uk
Wed Jul 22 19:25:25 UTC 2009

On Wed, Jul 22, 2009 at 7:16 PM, James Casbon<casbon at gmail.com> wrote:
> A bit late to the party, but I put my sff parsing code into this fork
> before reading this thread:
> http://github.com/jamescasbon/biopython/tree/sff
> I have a test suite but not sure where all the other QualityIO tests
> are so it can live with them
> It does work with the roche tools v2, but I have no paired end sff
> files to test.

Sounds interesting - github is being very slow for me right now,
so I'll probably take a look tomorrow. I'll be interested to see how
it compares to my rough code on Bug 2837 based on the code
from Jose Blanca (this doesn't do paired end reads yet).

This is something I hope to work on for Biopython 1.52, once
Biopython 1.51 final is out the door (later this month I hope).


More information about the Biopython-dev mailing list