frac_identical | Bio::Search::Tiling::MapTiling

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frac_identical | Bio::Search::Tiling::MapTiling

Thiago Venancio
Hi all,

Bio::Search::Tiling::MapTiling frac_identical() is calculating it over the total query length instead of the aligned length in a a BLASTN. Below is the code I am using:

while( my $hit = $result->next_hit ) {
     my $tiling = Bio::Search::Tiling::MapTiling->new($hit);
     my $id = $tiling->frac_identical(-type => 'query', -action => 'exact');
}

Does anyone know how to change this behavior ?

Best,
Thiago





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Re: frac_identical | Bio::Search::Tiling::MapTiling

Thiago Venancio
Solved. 
Thanks.

On Friday, February 27, 2015 at 4:26:23 PM UTC-3, Thiago Venancio wrote:
Hi all,

Bio::Search::Tiling::MapTiling frac_identical() is calculating it over the total query length instead of the aligned length in a a BLASTN. Below is the code I am using:

while( my $hit = $result->next_hit ) {
     my $tiling = Bio::Search::Tiling::MapTiling->new($hit);
     my $id = $tiling->frac_identical(-type => 'query', -action => 'exact');
}

Does anyone know how to change this behavior ?

Best,
Thiago





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