NAME¶
Bio::Structure::Model - Bioperl structure Object, describes a Model
SYNOPSIS¶
#add synopsis here
DESCRIPTION¶
This object stores a Bio::Structure::Chain
FEEDBACK¶
Mailing Lists¶
User feedback is an integral part of the evolution of this and other Bioperl
modules. Send your comments and suggestions preferably to one of the Bioperl
mailing lists. Your participation is much appreciated.
bioperl-l@bioperl.org - General discussion
http://bioperl.org/wiki/Mailing_lists - About the mailing lists
Support¶
Please direct usage questions or support issues to the mailing list:
bioperl-l@bioperl.org
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.
Reporting Bugs¶
Report bugs to the Bioperl bug tracking system to help us keep track the bugs
and their resolution. Bug reports can be submitted via the web:
https://github.com/bioperl/bioperl-live/issues
AUTHOR - Kris Boulez¶
Email kris.boulez@algonomics.com
APPENDIX¶
The rest of the documentation details each of the object methods. Internal
methods are usually preceded with a _
new()¶
Title : new()
Usage : $struc = Bio::Structure::Model->new(
-id => 'human_id',
);
Function: Returns a new Bio::Structure::Model object from basic
constructors. Probably most called from Bio::Structure::IO.
Returns : a new Bio::Structure::Model object
chain()¶
Title : chain
Usage :
Function: will eventually allow parent/child navigation not via an Entry object
Returns :
Args :
add_chain()¶
Title : add_chain
Usage :
Function: will eventually allow parent/child navigation not via an Entry object
Returns :
Args :
entry()¶
Title : entry
Usage :
Function: will eventually allow parent/child navigation not via an Entry object
Returns :
Args :
id()¶
Title : id
Usage : $model->id("model 5")
Function: Gets/sets the ID for this model
Returns : the ID
Args : the ID
residue()¶
Title : residue
Usage :
Function: will eventually allow parent/child navigation not via an Entry object
Returns :
Args :
add_residue()¶
Title : add_residue
Usage :
Function: will eventually allow parent/child navigation not via an Entry object
Returns :
Args :
_remove_chains()¶
Title : _remove_chains
Usage :
Function: Removes the chains attached to a Model. Tells the chains they
don't belong to this Model any more
Returns :
Args :
_remove_entry()¶
Title : _remove_entry
Usage :
Function: Removes the Entry this Model is atttached to.
Returns :
Args :
_create_default_chain()¶
Title : _create_default_chain
Usage :
Function: Creates a default Chain for this Model. Typical situation
in an X-ray structure where there is only one chain
Returns :
Args :
_grandparent()¶
Title : _grandparent
Usage :
Function: get/set a symbolic reference to our grandparent
Returns :
Args :