Bio::Annotation::Target.3pm

Langue: en

Version: 2008-06-24 (ubuntu - 07/07/09)

Section: 3 (Bibliothèques de fonctions)

NAME

Bio::Annotation::Target - Provides an object which represents a target (ie, a similarity hit) from one object to something in another database

SYNOPSIS

    $target1 = new Bio::Annotation::Target(-target_id  => 'F321966.1',
                                           -start      => 1,
                                           -end        => 200,
                                           -strand     => 1,   # or -1
                                          );
 
    # or
 
    $target2 = new Bio::Annotation::Target();
    $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);
 
 

DESCRIPTION

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

AUTHOR - Scott Cain

Scott Cain - cain@cshl.org

APPENDIX

The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _

AnnotationI implementing functions


as_text

  Title   : as_text
  Usage   :
  Function:
  Example :
  Returns :
  Args    :
 
 

tagname

  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)
 
 

Specific accessors for Targets


target_id

Usage
   $obj->target_id()        #get existing value
   $obj->target_id($newval) #set new value
 
 
Function
Returns
value of target_id (a scalar)
Arguments
new value of target_id (to set)