Uses of Class
org.biojava.nbio.structure.GroupType

Packages that use GroupType

Package	Description
org.biojava.nbio.structure	Interfaces and classes for protein structure (PDB).

Uses of GroupType in org.biojava.nbio.structure

Fields in org.biojava.nbio.structure declared as GroupType

Modifier and Type	Field and Description
static GroupType	AminoAcidImpl.type this is an Amino acid.
static GroupType	NucleotideImpl.type this is a "nucleotide", a special occurance of a Hetatom.
static GroupType	HetatomImpl.type The GroupType is HETATM

Methods in org.biojava.nbio.structure that return GroupType

Modifier and Type	Method and Description
static GroupType	StructureTools.getPredominantGroupType(Chain c) Get the predominant GroupType for a given Chain, following these rules: if the ratio of number of residues of a certain GroupType to total non-water residues is above the threshold 0.95, then that GroupType is returned if there is no GroupType that is above the threshold then the GroupType with most members is chosen, logging it
GroupType	AminoAcidImpl.getType()
GroupType	NucleotideImpl.getType()
GroupType	HetatomImpl.getType() Get Type of group, one of AMINOACID, HETATM or NUCLEOTIDE
GroupType	Group.getType() Get Type of group, one of AMINOACID, HETATM or NUCLEOTIDE
static GroupType	GroupType.valueOf(String name) Returns the enum constant of this type with the specified name.
static GroupType[]	GroupType.values() Returns an array containing the constants of this enum type, in the order they are declared.

Methods in org.biojava.nbio.structure with parameters of type GroupType

Modifier and Type	Method and Description
List<Group>	ChainImpl.getAtomGroups(GroupType type) Return a List of all (observed) Groups of a special type, one of: AMINOACID, HETATM or NUCLEOTIDE.
List<Group>	Chain.getAtomGroups(GroupType type) Return a List of all (observed) Groups of a special type, one of: AMINOACID, HETATM or NUCLEOTIDE.
List<Group>	ChainImpl.getSeqResGroups(GroupType type) Returns a List of all SEQRES groups of a special type, one of: AMINOACID, HETATM or NUCLEOTIDE.
List<Group>	Chain.getSeqResGroups(GroupType type) Returns a List of all SEQRES groups of a special type, one of: AMINOACID, HETATM or NUCLEOTIDE.