[Bioperl-l] Bio::DB::GFF and Gadfly GFFs question
venky at myrealbox.com
Wed Jun 11 15:39:19 EDT 2003
I've been using the D.mel GFFs processed using the process_gadfly.pl script
and accessing the mysql database with Bio::DB::GFF.
I'm trying to figure out how to get the attributes for a gene that I
retrieve from the database, for example:
my $db = Bio::DB::GFF(
my $cg = "CG2328";
my $gene = $db->segment( -class => 'Gene', -name => $cg );
now this lets me get the gene, its sequence etc as a
What I want is to access the attributes of the gene... for example the gene
line for CG2328 in the GFF looks like this:
2R gadfly gene 5038224 5041412 . + . Gene CG2328
; Note "Symbol eve" ; Note "FlyBase FBgn0000606"
I want to be able to read the "Note" attributes. It is possible to *find*
features by attribute, but I cant find a way to read the attributes from
the $gene above.
Can anyone help me with this?
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