Bio::Annotation::Target - Provides an object which represents a target (ie, a similarity hit) from one object to something in another database
$target1 = Bio::Annotation::Target->new(-target_id => 'F321966.1', -start => 1, -end => 200, -strand => 1, # or -1 ); # or $target2 = Bio::Annotation::Target->new(); $target2->target_id('Q75IM5'); $target2->start(7); # ... etc ... # Target is-a Bio::AnnotationI object, can be added to annotation # collections, e.g. the one on features or seqs $feat->annotation->add_Annotation('Target', $target2);
Provides an object which represents a target (ie, a similarity hit) from one object to something in another database without prescribing what is in the other database
Scott Cain - cain@cshl.org
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
Title : as_text Usage : Function: Example : Returns : Args :
Title : display_text Usage : my $str = $ann->display_text(); Function: returns a string. Unlike as_text(), this method returns a string formatted as would be expected for te specific implementation. One can pass a callback as an argument which allows custom text generation; the callback is passed the current instance and any text returned Example : Returns : a string Args : [optional] callback
Title : tagname Usage : $obj->tagname($newval) Function: Get/set the tagname for this annotation value. Setting this is optional. If set, it obviates the need to provide a tag to Bio::AnnotationCollectionI when adding this object. When obtaining an AnnotationI object from the collection, the collection will set the value to the tag under which it was stored unless the object has a tag stored already. Example : Returns : value of tagname (a scalar) Args : new value (a scalar, optional)
$obj->target_id() #get existing value $obj->target_id($newval) #set new value
value of target_id (a scalar)
new value of target_id (to set)
To install Bio::Seq, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::Seq
CPAN shell
perl -MCPAN -e shell install Bio::Seq
For more information on module installation, please visit the detailed CPAN module installation guide.