Provided by: libbio-perl-perl_1.7.8-1_all
NAME
Bio::SeqIO::FTHelper - Helper class for EMBL/Genbank feature tables
SYNOPSIS
Used by Bio::SeqIO::EMBL,Bio::SeqIO::genbank, and Bio::SeqIO::swiss to help process the Feature Table
DESCRIPTION
Represents one particular Feature with the following fields key - the key of the feature loc - the location string of the feature <other fields> - other fields
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 one of the Bioperl mailing lists. 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 the bugs and their resolution. Bug reports can be submitted via the web: https://github.com/bioperl/bioperl-live/issues
AUTHOR - Ewan Birney
Email birney@ebi.ac.uk
CONTRIBUTORS
Jason Stajich jason@bioperl.org
APPENDIX
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _ _generic_seqfeature Title : _generic_seqfeature Usage : $fthelper->_generic_seqfeature($annseq, "GenBank") Function: processes fthelper into a generic seqfeature Returns : TRUE on success and otherwise FALSE Args : The Bio::Factory::LocationFactoryI object to use for parsing location strings. The ID (e.g., display_id) of the sequence on which this feature is located, optionally a string indicating the source (GenBank/EMBL/SwissProt) from_SeqFeature Title : from_SeqFeature Usage : @fthelperlist = Bio::SeqIO::FTHelper::from_SeqFeature($sf, $context_annseq); Function: constructor of fthelpers from SeqFeatures : : The additional annseq argument is to allow the building of FTHelper : lines relevant to particular sequences (ie, when features are spread over : enteries, knowing how to build this) Returns : an array of FThelpers Args : seq features key Title : key Usage : $obj->key($newval) Function: Example : Returns : value of key Args : newvalue (optional) loc Title : loc Usage : $obj->loc($newval) Function: Example : Returns : value of loc Args : newvalue (optional) field Title : field Usage : Function: Example : Returns : Args : add_field Title : add_field Usage : Function: Example : Returns : Args :