[Bioperl-l] want score from needle output

neeti somaiya neetisomaiya at gmail.com
Wed Jan 31 10:25:33 UTC 2007


I am using a code like the following to parse needle output. While I am able
to get the percent identity value, the score method is not returning
anything, though the needle output does report a score too.

my $str = Bio::AlignIO->new(-format => 'emboss',-file => $needle_output);
my $aln = $str->next_aln();

my $aln_perc_iden = $aln->percentage_identity;
my $aln_score = $aln->score;

Can anyone suggest what the problem could be?

Even my blood says, B positive

More information about the Bioperl-l mailing list