To find out what method is attached to an object in BioPerl during debugging, use ref commend. >x ref($seq) It’ll show the class where the object belongs to and search for the class. Not so funny… Any other way? NB.
Simple code example to retrieve annotations 1 #!/usr/bin/perl -w 2 3 use strict; 4 use Carp; 5 use Bio::SeqIO; 6 7 my $embl_file = shift; 8 my $informat = “embl”; 9 10 my $seq_in = Bio::SeqIO -> new(-file => “
When you have a problem during installing BioPerl using CPAN, use the -H option. It will initialize Home environment. With this option, I managed to install BioPerl on my Mac OS X 10.5 Leopard. sudo -H cpan
Wow, BioPerl is a beast with more than 800 module dependencies. I managed to install BioPerl on Mac OS X.