[Biopython-dev] sff file

Peter biopython at maubp.freeserve.co.uk
Mon Oct 26 22:24:21 UTC 2009

On Mon, Oct 26, 2009 at 9:32 PM, Kevin Jacobs <jacobs at bioinformed.com>
<bioinformed at gmail.com> wrote:
> At the risk of asking a dumb question, is this native SFF support
> better than what is available via BioLib?
> ~Kevin

What do mean by better?

>From my point of view, the nice thing about this (the Biopython
SFF code) is it is integrated into the Bio.SeqIO system using
SeqRecord objects, so you can use the same scripts etc that
you may have written for processing FASTA or FASTQ files.

Also, it is pure Python which may be important for cross platform
use (e.g. Jython, IronPython, ...).

According to their webpage, the BioLib SFF support is via the
Staden io_lib, which is probably pretty efficient.


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