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BioPerl-1.6.920
River stage two • 60 direct dependents • 65 total dependents
/ Bio::Search::Result::hmmer3Result

NAME

Bio::Search::Result::hmmer3Result - DESCRIPTION of Object

SYNOPSIS

Give standard usage here

DESCRIPTION

Describe the object here

FEEDBACK

Mailing Lists

User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to the Bioperl mailing list. Your participation is much appreciated.

bioperl-l@bioperl.org                  - General discussion
http://bioperl.org/wiki/Mailing_lists  - About the mailing lists

Support

Please direct usage questions or support issues to the mailing list:

bioperl-l@bioperl.org

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.

Reporting Bugs

Report bugs to the Bioperl bug tracking system to help us keep track of the bugs and their resolution. Bug reports can be submitted via the web:

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

AUTHOR - Thomas Sharpton

Email thomas.sharpton@gmail.com

Describe contact details here

CONTRIBUTORS

Additional contributors names and emails here

APPENDIX

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

new

Title   : new
Usage   : my $obj = new Bio::Search::Result::hmmer3Result.pm();
Function: Builds a new Bio::Search::Result::hmmer3Result.pm object 
Returns : an instance of Bio::Search::Result::hmmer3Result.pm
Args    : -hmm_name => string, name of hmm file
          -sequence_file => name of the sequence file

hmm_name

Title   : hmm_name
Usage   : $obj->hmm_name($newval)
Function: Get/Set the value of hmm_name
Returns : value of hmm_name
Args    : newvalue (optional)

sequence_file

Title   : sequence_file
Usage   : $obj->sequence_file($newval)
Function: Get/Set the value of sequence_file
Returns : value of sequence_file
Args    : newvalue (optional)

next_model

Title   : next_model
Usage   : my $domain = $result->next_model
Function: Returns the next domain - this
          is an alias for next_hit
Returns : L<Bio::Search::Hit::HitI> object
Args    : none

models

Title   : models
Usage   : my @domains = $result->models;
Function: Returns the list of HMM models seen - this
          is an alias for hits()
Returns : Array of L<Bio::Search::Hit::HitI> objects
Args    : none

rewind

Title   : rewind
Usage   : $result->rewind;
Function: Allow one to reset the Hit iteration to the beginning
          Since this is an in-memory implementation
Returns : none
Args    : none