Uses of Interface
org.simtk.molecularstructure.Chemical

Packages that use Chemical

org.simtk.moleculargraphics.cartoon
org.simtk.molecularstructure
org.simtk.molecularstructure.atom
org.simtk.molecularstructure.nucleicacid
org.simtk.molecularstructure.protein

Uses of Chemical in org.simtk.moleculargraphics.cartoon

Fields in org.simtk.moleculargraphics.cartoon with type parameters of type Chemical

protected java.util.Map<Chemical,java.lang.Integer>	ToonColors.chemicalIndices
protected java.util.Map<java.lang.Integer,Chemical>	ToonColors.indexChemicals

Methods in org.simtk.moleculargraphics.cartoon that return Chemical

Chemical	ToonColors.getChemicalFromScalar(int scalar)
Chemical	ActorCartoonClass.getChemicalFromScalar(int scalar)
Chemical	ActorCartoon.getChemicalFromScalar(int scalar)

Methods in org.simtk.moleculargraphics.cartoon with parameters of type Chemical

protected void	CylinderCartoon.addCylinder(Vector3D begin, Vector3D end, java.awt.Color color, Chemical modelObject)
protected int	ActorCartoonClass.getColorIndex(Chemical colorable)

Method parameters in org.simtk.moleculargraphics.cartoon with type arguments of type Chemical

protected void	BetaStrandRibbon.createArrow(java.util.List<Vector3D> positions, java.util.List<Vector3D> normals, java.util.List<Chemical> objects, double ribbonThickness, double arrowWidth)
protected void	ProteinCoil.createCoil(java.util.List<Vector3D> positions, java.util.List<Vector3D> normals, java.util.List<Chemical> objects, double diameter)
protected vtk.vtkPolyData	ProteinRibbonSegment.createPolyLine(java.util.List<Vector3D> positions, java.util.List<Vector3D> normals, java.util.List<Chemical> objects)
protected void	ProteinHelix.createTaperedRibbon(java.util.List<Vector3D> positions, java.util.List<Vector3D> normals, java.util.List<Chemical> objects, double ribbonThickness, double ribbonWidth)

Uses of Chemical in org.simtk.molecularstructure

Subinterfaces of Chemical in org.simtk.molecularstructure

interface	Biopolymer
interface	Molecular
interface	Molecule
interface	Residue

Classes in org.simtk.molecularstructure that implement Chemical

class	BiopolymerClass
class	MolecularClass
class	MoleculeClass
class	MoleculeCollection
class	ResidueClass

Uses of Chemical in org.simtk.molecularstructure.atom

Subinterfaces of Chemical in org.simtk.molecularstructure.atom

interface	Atom
interface	ChemicalElement

Classes in org.simtk.molecularstructure.atom that implement Chemical

class	AtomClass
class	ChemicalElementClass Instantiates interface for ChemicalElement, using a single set of parameters for each element in the periodic table

Uses of Chemical in org.simtk.molecularstructure.nucleicacid

Classes in org.simtk.molecularstructure.nucleicacid that implement Chemical

class	DNA
class	NucleicAcid
class	RNA

Uses of Chemical in org.simtk.molecularstructure.protein

Subinterfaces of Chemical in org.simtk.molecularstructure.protein

interface	LocatedProtein
interface	Protein

Classes in org.simtk.molecularstructure.protein that implement Chemical

class

PDBProteinClass