NAME

       Bio::Tools::PSort::Profile - Perl implementation of the Profile protein subcellular
       localization method.

SYNOPSIS

         use Bio::Tools::PSort::Profile;

         # Load a previously trained profile from a file.
         $motif = new Bio::Tools::PSort::Profile(-database => 'profile-db.txt');

         # Attempt to match on a Bio::Seq object.
         @matches = $motif->match($seq);
         print($seq->display_id . ": matched " . $_->profile_id . "\n") for(@matches);

DESCRIPTION

       Bio::Tools::Motif uses a selection of motifs that have been identified to be typical of
       proteins resident at a specific subcellular localization.  The module accepts a Bio::Seq
       object and attempts to match it against a database, returning one or more
       Bio::Tools::Motif::Match objects with the prediction information if successful.

CONSTRUCTOR

          $motif = new Bio::Tools::Motif(-database => 'motif-db.txt');

       The Motif constructor accepts the name of an existing database file.

METHODS

          @matches = $motif->match($seq);

       The match method accepts a Bio::Seq object as an argument and returns an array of
       Bio::Tools::Motif::Match objects that matched the given sequence.

AUTHOR

       Fiona Brinkman, Chris Walsh, Matthew Laird <psort-mail@sfu.ca> Brinkman Lab, Simon Fraser
       University, Canada

SEE ALSO

       Bio::Tools::Motif::Pattern, Bio::Tools::Motif::Match

ACKNOWLEGEMENTS

       Thanks go out to Fiona Brinkman, Jennifer Gardy and the other members of the Simon Fraser
       University Brinkman laboratory.

POD ERRORS

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       Around line 99:
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