| Bio::DB::GFF::Typename(3pm) | User Contributed Perl Documentation | Bio::DB::GFF::Typename(3pm) |
Bio::DB::GFF::Typename -- The name of a feature type
use Bio::DB::GFF; my $type = Bio::DB::GFF::Typename->new(similarity => 'BLAT_EST_GENOME'); my $segment = $segment->features($type);
Bio::DB::GFF::Typename objects encapsulate the combination of feature method and source used by the GFF flat file format. They can be used in the Bio::DB::GFF modules wherever a feature type is called for.
Since there are relatively few types and many features, this module maintains a memory cache of unique types so that two features of the same type will share the same Bio::DB::GFF::Typename object.
Title : new Usage : $type = Bio::DB::GFF::Typename->new($method,$source) Function: create a new Bio::DB::GFF::Typename object Returns : a new Bio::DB::GFF::Typename object Args : method and source Status : Public
Title : method Usage : $method = $type->method([$newmethod]) Function: get or set the method Returns : a method name Args : new method name (optional) Status : Public
Title : source Usage : $source = $type->source([$newsource]) Function: get or set the source Returns : a source name Args : new source name (optional) Status : Public
Title : asString Usage : $string = $type->asString Function: get the method and source as a string Returns : a string in "method:source" format Args : none Status : Public
This method is used by operator overloading to overload the '""' operator.
Title : clone Usage : $new_clone = $type->clone; Function: clone this object Returns : a new Bio::DB::GFF::Typename object Args : none Status : Public
This method creates an exact copy of the object.
Title : match Usage : $boolean = $type->match($type_or_string) Function: fuzzy match on types Returns : a flag indicating that the argument matches the object Args : a Bio::DB::GFF::typename object, or a string in method:source format Status : Public
This match allows Sequence:Link and Sequence: to match, but not Sequence:Link and Sequence:Genomic_canonical.
This module is still under development.
bioperl, Bio::DB::GFF, Bio::DB::RelSegment
Lincoln Stein <lstein@cshl.org>.
Copyright (c) 2001 Cold Spring Harbor Laboratory.
This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself.
| 2020-01-13 | perl v5.30.0 |