NAME

Bio::Tools::Coil - parser for Coil output

SYNOPSIS

use Bio::Tools::Coil
my $parser = Bio::Tools::Coil->new();
while( my $sp_feat = $parser->next_result($file) ) {
      #do something
      #eg
      push @sp_feat, $sp_feat;
}

DESCRIPTION

Parser for Coil output

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://github.com/bioperl/bioperl-live/issues

AUTHOR

Based on the EnsEMBL module Bio::EnsEMBL::Pipeline::Runnable::Protein::Coil
originally written by Marc Sohrmann (ms2@sanger.ac.uk)
Written in BioPipe by Balamurugan Kumarasamy <savikalpa@fugu-sg.org>
# Please direct questions and support issues to <bioperl-l@bioperl.org> 
#
Cared for by the Fugu Informatics team (fuguteam@fugu-sg.org)

APPENDIX

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

parse_results

Title   : parse_results
Usage   : obj->parse_results
Function: Parses the coil output. Automatically called by
          next_result() if not yet done.
Example :
Returns :

next_result

Title   : next_result
Usage   : while($feat = $coil->next_result($file)) {
                 # do something
          }
Function: Returns the next protein feature of the coil output file
Returns : 
Args    :

_result

Title   : _result
Usage   : $feat = $obj->_result()
Function: internal
Example :
Returns :

_add_prediction

Title   : _add_prediction()
Usage   : $obj->_add_prediction($feat)
Function: internal
Example :
Returns :

_predictions_parsed

Title   : _predictions_parsed
Usage   : $obj->_predictions_parsed
Function: internal
Example :
Returns : TRUE or FALSE

create_feature

Title   : create_feature
Usage   : obj->create_feature(\%feature)
Function: Internal(not to be used directly)
Returns :
Args    :

_read_fasta

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

cpanm Bio::Seq

perl -MCPAN -e shell
install Bio::Seq