[Bioperl-l] UCSC database -> GFF
allenday at ucla.edu
Tue Jun 17 14:23:27 EDT 2003
I wrote it ~1 year ago.
On Tue, 17 Jun 2003, Lincoln Stein wrote:
> Where did that come from? I was just talking with Mummi about how badly we
> need this and how difficult it will be to do it right.
> On Tuesday 17 June 2003 02:07 pm, 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.
> > >
> > > Thanks,
> > >
> > > :Paul
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