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Bio::Tools::Coil.3pm
Langue: en
Version: 2008-06-24 (ubuntu - 07/07/09)
Section: 3 (Bibliothèques de fonctions)
NAME
Bio::Tools::Coil - parser for Coil outputSYNOPSIS
use Bio::Tools::Coil my $parser = new Bio::Tools::Coil(); while( my $sp_feat = $parser->next_result($file) ) { #do something #eg push @sp_feat, $sp_feat; }
DESCRIPTION
Parser for Coil output
FEEDBACK
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Reporting Bugs
Report bugs to the Bioperl bug tracking system to help us keep track of the bugs and their resolution. Bug reports can be submitted via the web:
http://bugzilla.open-bio.org/
AUTHOR
Based on the EnsEMBL module Bio::EnsEMBL::Pipeline::Runnable::Protein::Coil originally written by Marc Sohrmann (ms2@sanger.ac.uk) Written in BioPipe by Balamurugan Kumarasamy <savikalpa@fugu-sg.org> Cared for by the Fugu Informatics team (fuguteam@fugu-sg.org)
APPENDIX
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
parse_results
Title : parse_results Usage : obj->parse_results Function: Parses the coil output. Automatically called by next_result() if not yet done. Example : Returns :
next_result
Title : next_result Usage : while($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 :
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