Package org.helm.notation2

Interface Summary

Interface	Description
NotationConstant

Class Summary

Class	Description
Attachment	This is a data model for Attachment point on monomer
AttachmentLoader	loads attachments from a given input stream
Chemistry	Chemistry, singleton class to define which Chemistry-Plugin is used
DeepCopy
InterConnections	InterConnections, class to save the interconnections of a HELM
MoleculeProperty	MoleculeInfo
Monomer	This is a data model for Monomer. alternateId is used in polymer notation.
MonomerCache
MonomerFactory	This is a factory class to build monomer database from MonomerDBGZEnconded.xml document
MonomerStore	This class represents a store for monomers.
Nucleotide	This is a data model class for nucleotide
NucleotideFactory	This is a factory class to build nucleotide templates
RgroupStructure	RgroupStructure
SimpleNotationGroupIterator	Iterator class for groups within a simple notation string