Bio::AnnotatableI - the base interface an annotatable object must implement
use Bio::SeqIO;
# get an annotatable object somehow: for example, Bio::SeqI objects
# are annotatable
my $seqio = Bio::SeqIO->new(-fh => \*STDIN, -format => 'genbank');
while (my $seq = $seqio->next_seq()) {
# $seq is-a Bio::AnnotatableI, hence:
my $ann_coll = $seq->annotation();
# $ann_coll is-a Bio::AnnotationCollectionI, hence:
my @all_anns = $ann_coll->get_Annotations();
# do something with the annotation objects
}
This is the base interface that all annotatable objects must implement. A good
example is Bio::Seq which is an AnnotableI object.
User feedback is an integral part of the evolution of this and other Bioperl
modules. Send your comments and suggestions preferably to the Bioperl mailing
list. Your participation is much appreciated.
[email protected] - General discussion
http://bioperl.org/wiki/Mailing_lists - About the mailing lists
Please direct usage questions or support issues to the mailing list:
[email protected]
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.
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:
https://github.com/bioperl/bioperl-live/issues
Hilmar Lapp E<lt>[email protected]<gt>
Allen Day E<lt>[email protected]<gt>
The rest of the documentation details each of the object methods. Internal
methods are usually preceded with a _
Title : annotation
Usage : $obj->annotation($newval)
Function: Get the annotation collection for this annotatable object.
Example :
Returns : a Bio::AnnotationCollectionI implementing object, or undef
Args : on set, new value (a Bio::AnnotationCollectionI
implementing object, optional) (an implementation may not
support changing the annotation collection)
See Bio::AnnotationCollectionI