[Bioperl-l] ABI file parsing

[Malay]

I could not wait and I am not sure whether my effort
was in vain(read reinventing the wheel) or not but I
have written ABI.pm which can parse an ABI file. It
can give the sequence and raw traces.

By the way, the module was written for my BioSVG set
of modules and BioSVG now can generate chromatograms
in SVG format. "BioSVG::ABI" uses ABI.pm to extract
the ABI traces to draw the cromatograms.  

Both these modules will be available from CPAN. 

Regards,

Malay
 
--- Peter Kos <kos@rite.or.jp> wrote:
> Hi,
> 
> > Before I go ahead and write a module, has anyone
> > written a module for parsing ABI chromatogram
> file?
> Once I was considering that but ABI somehow refused 
> to give me the specification.
> Now I use a stone-age solution, so I would be
> interested 
> if you have/find something better.
> 
> Be aware, however, that phred usually provides a
> better 
> base-calling, so you might want to pass your ABI
> files 
> through phred first, if it is OK at your site. And
> phred 
> can write scf files which have been already dealt
> with in 
> Bioperl, if I am right. 
> 
> Good luck
> Peter
> 


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