[BioPython] martel & mindy

[Cath Lawrence]

(From the UniGene thread)
On Thursday, July 18, 2002, at 05:45 AM, Jeffrey Chang wrote:
> On Wed, Jul 17, 2002 at 07:34:25AM -0700, Sagar Damle wrote:
>> thoughts anyone?  I'm not really a programmer, just a scripter, so I
>> may be way off-base here.
> Yes, I think you are right.  For more than trivial use of LocusLink,
> you really should download the flatfiles and index them by hand.
> Fortunately, Biopython does provide these capabilities with
> Martel/Mindy.  If you build parsers for this with Martel, Mindy can
> automatically take a parser and flat file and build indexes for fast
> access to the file.

Oooh, can I do that with PDB? Can anyone point me to documentation?

I have the CVS version of BioPython with PDB parser but don't know much
about its internals yet. It is also pretty slow with big records, and
building an index on just a few fields would be really useful.

thanks
Cath
Cath Lawrence,                       Cath.Lawrence@anu.edu.au
Scientific Programmer,  Centre for Bioinformation Science,
John Curtin School of Medical Research
Australian National University,  Canberra ACT 0200
ph: Maths (02) 6125 2904;  JCSMR (02) 6125 0417;
mobile: 0421-902694   fax: (02) 61254712