[Bioperl-l] Bio::Graphics

[Lincoln Stein]

Sorry for responding so late to this e-mail.  You were looking at an out of 
date tutorial that no longer matches the code base.  However, the tutorial 
has now been updated and the examples should work.

Lincoln

On Wednesday 06 August 2003 03:09 am, Laurence Amilhat wrote:
> Hi,
>
> I try to learn how to use the module Bio::Graphics.
> I found he How To from Lincoln Stein on the web. I try to practice with the
> examples, it's working except for the labels of the features that don't
> appear on my figure.
> Does anybody ever use this module?
>
> This is the example:
> #!/usr/local/public/bin/perl
>
> use strict;
> use lib
> '/homej/bioinf/lamilhat/PERL_MODULE/lib/perl5/site_perl/5.005/BIOPERL/lib/s
>ite_perl/5.6.1/'; use Bio::Graphics;
> use Bio::SeqFeature::Generic;
>
> my $panel= Bio::Graphics::Panel->new(-length =>1000,-width =>800);
> my $track=$panel->add_track(-glyph =>'generic',-label =>1);
>
>
> while (<>)
> {
>          chomp;
>          next if /^\#/;
>          my ($name,$score,$start,$end)=split /\t+/;
>          print STDERR "$name\n";
>          my $feature=
> Bio::SeqFeature::Generic->new(-display_name=>$name,-score=>$score,-start=>$
>start,-end=>$end); $track->add_feature($feature);
> }
>
> print $panel->png;
>
>
> And this is the Data to parse with the example:
> #hit    score   start   end
> truc1   381     2       200
> truc2   210     2       210
> truc3   800     2       200
> truc4   1000    380     921
> truc5   812     402     972
> truc6   1200    400     970
> bum     400     300     620
> pres1   127     310     700
>
>
> Thanks,
>
> Laurence.
>
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-- 
========================================================================
Lincoln D. Stein                           Cold Spring Harbor Laboratory
lstein at cshl.org			                  Cold Spring Harbor, NY
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