Bio::Tools::Run::Genscan - Object for identifying genes in a given sequence given a matrix(for

       The rest of the documentation details each of the object methods. Internal methods are usually preceded
       with a _

   program_name
        Title   : program_name
        Usage   : $factory>program_name()
        Function: holds the program name
        Returns:  string
        Args    : None

   program_dir
        Title   : program_dir
        Usage   : $factory->program_dir(@params)
        Function: returns the program directory, obtained from ENV variable.
        Returns:  string
        Args    :

   predict_genes()
           Title   :   predict_genes()
           Usage   :   DEPRECATED: use $obj->run($seq) instead
           Function:   Runs genscan and creates an array of Genes
           Returns :   An array of Bio::Tools::Prediction::Gene objects
           Args    :   A Bio::PrimarySeqI

   run
           Title   :   run
           Usage   :   $obj->run($seq)
           Function:   Runs genscan and creates an array of Genes
           Returns :   An array of Bio::Tools::Prediction::Gene objects
           Args    :   A Bio::PrimarySeqI

   _run
           Title   :   _run
           Usage   :   $obj->_run()
           Function:   Internal(not to be used directly)
           Returns :   An array of Bio::Tools::Prediction::Gene objects
           Args    :

   _set_input()
           Title   :   _set_input
           Usage   :   obj->_set_input($matrixFile,$seqFile)
           Function:   Internal(not to be used directly)
           Returns :
           Args    :

   _writeSeqFile()
           Title   :   _writeSeqFile
           Usage   :   obj->_writeSeqFile($seq)
           Function:   Internal(not to be used directly)
           Returns :
           Args    :

perl v5.34.0                                       2022-02-10                      Bio::Tools::Run::Genscan(3pm)

       Email savikalpa@fugu-sg.org

       Genscan is a gene identifying program developed by Christopher Burge http://genes.mit.edu/burgelab/

       By default it looks for an executable called genscan and data/parameter files in the directory specified
       by the GENSCANDIR environmental variable.

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       rather than to the module maintainer directly. Many experienced and reponsive experts will be able look
       at the problem and quickly address it. Please include a thorough description of the problem with code and
       data examples if at all possible.

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       reports can be submitted via the web:

         http://redmine.open-bio.org/projects/bioperl/

       Bio::Tools::Run::Genscan - Object for identifying genes in a given sequence given a matrix(for
       appropriate organisms).

         # Build a Genscan factory
         my $param = ('MATRIX'=>HumanIso.smat);
         my  $factory = Bio::Tools::Run::Genscan->new($param);

         # Pass the factory a Bio::Seq object
         #@genes is an array of Bio::Tools::Predictions::Gene objects
         my @genes = $factory->run($seq);