| Bio::SeqIO::FTHelper(3pm) | User Contributed Perl Documentation | Bio::SeqIO::FTHelper(3pm) |
Bio::SeqIO::FTHelper - Helper class for EMBL/Genbank feature tables
Used by Bio::SeqIO::EMBL,Bio::SeqIO::genbank, and Bio::SeqIO::swiss to help process the Feature Table
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
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Jason Stajich jason@bioperl.org
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
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)
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
Title : key Usage : $obj->key($newval) Function: Example : Returns : value of key Args : newvalue (optional)
Title : loc Usage : $obj->loc($newval) Function: Example : Returns : value of loc Args : newvalue (optional)
Title : field Usage : Function: Example : Returns : Args :
Title : add_field Usage : Function: Example : Returns : Args :
| 2018-10-27 | perl v5.26.2 |