[Bioperl-l] UCSC database -> GFF

Paul Edlefsen pedlefsen at systemsbiology.org
Tue Jun 17 12:26:50 EDT 2003

If it was a snake it woulda bit me!  Thanks.


Jason Stajich wrote:

>Does core/scripts/Bio-DB-GFF/load_ucsc.pl work for you?
>On Tue, 17 Jun 2003, Paul Edlefsen wrote:
>>The Generic Genome Browser comes with many helpful scripts for
>>converting various data sources into GFF format.  I am wondering if
>>anyone in the bioperl community has written one for the UCSC data, as is
>>available at ftp://genome.cse.ucsc.edu/goldenPath/10april2003/database
>>and described at http://genome.ucsc.edu/goldenPath/gbdDescriptions.html
>>-- I noticed that  Allen Day wrote some handy aggregators for that data
>>such as Bio::DB::GFF::ucsc_genscan, so I wanted to check before I start
>>writing Generic-Genome-Browser/bin/process_ucsc.PLS.
>>  :Paul
>Jason Stajich
>Duke University
>jason at cgt.mc.duke.edu

|    o-o     Paul T. Edlefsen
|    o---o   Computational Biologist
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