Rechercher une page de manuel
Bio::SeqIO::FTHelper.3pm
Langue: en
Version: 2010-05-19 (ubuntu - 24/10/10)
Section: 3 (Bibliothèques de fonctions)
Sommaire
NAME
Bio::SeqIO::FTHelper - Helper class for Embl/Genbank feature tablesSYNOPSIS
Used by Bio::SeqIO::EMBL,Bio::SeqIO::genbank, and Bio::SeqIO::swiss to help process the Feature TableDESCRIPTION
Represents one particular Feature with the following fieldskey - 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:http://bugzilla.open-bio.org/
AUTHOR - Ewan Birney
Email birney@ebi.ac.ukCONTRIBUTORS
Jason Stajich jason@bioperl.orgAPPENDIX
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 :
Contenus ©2006-2024 Benjamin Poulain
Design ©2006-2024 Maxime Vantorre