Package com.hfg.bio

Interface Summary

Interface	Description
AAGroupingScheme	Interface for amino acid grouping schemes.

Class Summary

Class	Description
AAGroup	Amino acid group.
AAGroupingSchemeImpl	Base class for amino acid grouping schemes.
AminoAcid	Amino Acid.
AminoAcidFreqTable	Table of amino acid frequency data.
AminoAcidSet	Mapping of sequence characters to AminoAcids.
CTerminalGroup	C-terminal protein group.
DbXref	Simple container for a database cross-reference.
DigestFragment	Product of a proteolytic digest.
DigestSettings	Settings for protein digestion via protease(s).
HfgBioXML	XML tag and attribute names for bio classes.
KaSet	Encapsulation for a group of Ka (dissociation constant) values.
NTerminalGroup	N-terminal protein group.
Nucleotide	Nucleotide.
Protease	Chemical or biological proteolytic agent which can be used to theoretically digest a Protein.
StandardAAGroupingScheme	Standard grouping of amino acids.
Strand	Enum-like sequence strand class

Enum Summary

Enum	Description
Nucleotide.BaseType
pH	Simple enumeration of pH ranges.
PhysicalProperty	Physical property names.
ProteinAnalysisMode

Exception Summary

Exception	Description
InvalidResidueException	Indicates that the specified residue was not allowed.