Uses of Class
org.jmol.modelset.Group
Packages that use Group
Package
Description
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Uses of Group in org.jmol.modelset
Fields in org.jmol.modelset declared as GroupModifier and TypeFieldDescriptionAtom.groupGroup[]Chain.groupsGroups form the essence of what a Chain is.Group[]ModelLoader.groupsMethods in org.jmol.modelset that return GroupModifier and TypeMethodDescriptionGroup[]ModelSet.getGroups()In versions earlier than 12.1.51, groups[] was a field of ModelCollection.Methods in org.jmol.modelset with parameters of type GroupModifier and TypeMethodDescriptionModelSet.addAtom(int modelIndex, Group group, int atomicAndIsotopeNumber, String atomName, String atomType, int atomSerial, int atomSeqID, int atomSite, P3 xyz, float radius, V3 vib, int formalCharge, float partialCharge, float occupancy, float bfactor, Lst<Object> tensors, boolean isHetero, boolean isNegDisorder, byte specialAtomID, BS atomSymmetry, float bondRadius) protected voidModelSet.calculatePolymers(Group[] groups, int groupCount, int baseGroupIndex, BS modelsExcluded) booleanGroup.isCrossLinked(Group g) -
Uses of Group in org.jmol.modelsetbio
Subclasses of Group in org.jmol.modelsetbioModifier and TypeClassDescriptionclassclassclassclassA class to maintain information about biomolecule groups that are (potentially) part of biopolymers -- peptides, nucleic acid strands, or complex carbohydrates.classclassMethods in org.jmol.modelsetbio that return GroupModifier and TypeMethodDescriptionBioResolver.distinguishAndPropagateGroup(Chain chain, String group3, int seqcode, int firstAtomIndex, int lastAtomIndex, int[] specialAtomIndexes, Atom[] atoms) Methods in org.jmol.modelsetbio with parameters of type GroupModifier and TypeMethodDescriptionvoidBioModelSet.calculateAllPolymers(Group[] groups, int groupCount, int baseGroupIndex, BS modelsExcluded) protected booleanMonomer.getCrossLinkGroup(int i, Lst<Integer> vReturn, Group group, boolean crosslinkCovalent, boolean crosslinkHBond, boolean isNotCheck) booleanMonomer.isCrossLinked(Group g) booleanNucleicMonomer.isCrossLinked(Group g) voidBioModelSet.recalculateAllPolymers(BS bsModelsExcluded, Group[] groups) -
Uses of Group in org.jmol.shape
Methods in org.jmol.shape with parameters of type Group -
Uses of Group in org.jmol.shapebio
Methods in org.jmol.shapebio with parameters of type Group -
Uses of Group in org.jmol.viewer
Methods in org.jmol.viewer with parameters of type GroupModifier and TypeMethodDescriptionfloatShapeManager.getAtomShapeValue(int tok, Group group, int atomIndex) voidShapeManager.replaceGroup(Group g0, Group g1)