Why not Bio-Perl?
http://bio.perl.org/
On 24 Aug 1999, Joe Ryan wrote:
> > > I'm looking for some free software to parse GenBank flat file format or
> > > better ASN.1 format.
>> > perl -MCPAN install Bundle::Convert::BER
>> I have looked at Bundle::Convert::BER and I think it only converts
> ASN.1 TO and FROM its binary format. I had heard that there was a
> Perl ASN.1 module in the works from NCBI within the SEALS project
>>http://www.ncbi.nlm.nih.gov/Walker/SEALS/>> Haven't heard of a finished product though. Please post if you have
> good news.
>> Joe
> --
> Joseph Ryan
> Programmer
> National Human Genome Research
>>> On Tue, Aug 24, 1999 at 01:48:16PM -0500, Jonathan Epstein wrote:
> > Try:
> > perl -MCPAN install Bundle::Convert::BER
> >
> > Haven't tried it myself. Please let me know if you have any success.
> >
> > - Jonathan
> >
> >
> > Arne Mueller wrote:
> >
> > > Hi All,
> > >
> > > I'm looking for some free software to parse GenBank flat file format or
> > > better ASN.1 format. Is there any perl or better python module available
> > > to read in an ASN.1 file and to presnet all the information in a
> > > datastructure (hashes, lists, objects whatever ...)?
> > >
> > > I'm interested in genomic ORFs but flat FASTA amino acid files do not
> > > provide enough information for my purpose, also I'd like (have) to
> > > automize most of the dataprocessing. I know there must be a parser
> > > (written in C) included in the NCBI toolkit but I'd like to have
> > > something written in perl or python.
> > >
> > > Any suggestions,
> > > Thanks alot,
> > >
> > > Arne
> > >
> > > --
> > > Arne Mueller
> > > Biomolecular Modelling Laboratory
> > > Imperial Cancer Research Fund
> > > 44 Lincoln's Inn Fields
> > > London WC2A 3PX, U.K.
> > > phone : +44-(0)171 2693405 | fax :+44-(0)171-269-3534
> > > email : a.mueller at icrf.icnet.uk | http://www.icnet.uk/bmm/> >
> >
>
===============================================================================
Science is the game we play with God to find out what his rules are.
-------------------------------------------------------------------------------
Doo Suk Yang
Research Scientist Voice: 82-42-866-2222
LG Chemical Ltd. Research Park
Biotech Research Institute I FAX: 82-42-861-2566
-------------------------------------------------------------------------------
A fool hath no delight in understanding, but that his heart may discover itself.
(Proverbs 18:2)
===============================================================================
