[Bioperl-l] RNAMotif parser
torsten.seemann at infotech.monash.edu.au
Fri Jan 27 20:30:34 EST 2006
> I have been fiddling with an RNAMotif parser and an ERPIN parser for a
> number of years now; I plan on releasing it for inclusion in bioperl or
> bioperl-run. Right now, I think I may base them somewhat on your
> Bio::Tools::QRNA module. Should they be in bioperl (Bio::Tools::RNAMotif)
> or bioperl-run (Bio::Tools::Run::RNAMotif) namespace?
From my understanding, a module to _parse the output_ of some TOOL goes
in Bio::Tools::TOOL. The wrapper to _run_ TOOL goes in
Bio::Tools::Run::TOOL. Usually the run() method in Bio::Tools::Run::TOOL
takes the TOOL output and creates a Bio::Tools::TOOL object with the
result in it as a convenience.
Victorian Bioinformatics Consortium, Monash University, Australia
Phone: +61 3 9905 9010
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