A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

D

DARK_BLUE - Static variable in class org.simtk.util.ColorName

DARK_CYAN - Static variable in class org.simtk.util.ColorName

DARK_GOLDENROD - Static variable in class org.simtk.util.ColorName

DARK_GOLDENROD1 - Static variable in class org.simtk.util.ColorName

DARK_GOLDENROD2 - Static variable in class org.simtk.util.ColorName

DARK_GOLDENROD3 - Static variable in class org.simtk.util.ColorName

DARK_GOLDENROD4 - Static variable in class org.simtk.util.ColorName

DARK_GRAY - Static variable in class org.simtk.util.ColorName

DARK_GREEN - Static variable in class org.simtk.util.ColorName

DARK_GREY - Static variable in class org.simtk.util.ColorName

DARK_KHAKI - Static variable in class org.simtk.util.ColorName

DARK_MAGENTA - Static variable in class org.simtk.util.ColorName

DARK_OLIVE_GREEN - Static variable in class org.simtk.util.ColorName

DARK_OLIVE_GREEN1 - Static variable in class org.simtk.util.ColorName

DARK_OLIVE_GREEN2 - Static variable in class org.simtk.util.ColorName

DARK_OLIVE_GREEN3 - Static variable in class org.simtk.util.ColorName

DARK_OLIVE_GREEN4 - Static variable in class org.simtk.util.ColorName

DARK_ORANGE - Static variable in class org.simtk.util.ColorName

DARK_ORANGE1 - Static variable in class org.simtk.util.ColorName

DARK_ORANGE2 - Static variable in class org.simtk.util.ColorName

DARK_ORANGE3 - Static variable in class org.simtk.util.ColorName

DARK_ORANGE4 - Static variable in class org.simtk.util.ColorName

DARK_ORCHID - Static variable in class org.simtk.util.ColorName

DARK_ORCHID1 - Static variable in class org.simtk.util.ColorName

DARK_ORCHID2 - Static variable in class org.simtk.util.ColorName

DARK_ORCHID3 - Static variable in class org.simtk.util.ColorName

DARK_ORCHID4 - Static variable in class org.simtk.util.ColorName

DARK_RED - Static variable in class org.simtk.util.ColorName

DARK_SALMON - Static variable in class org.simtk.util.ColorName

DARK_SEA_GREEN - Static variable in class org.simtk.util.ColorName

DARK_SEA_GREEN1 - Static variable in class org.simtk.util.ColorName

DARK_SEA_GREEN2 - Static variable in class org.simtk.util.ColorName

DARK_SEA_GREEN3 - Static variable in class org.simtk.util.ColorName

DARK_SEA_GREEN4 - Static variable in class org.simtk.util.ColorName

DARK_SLATE_BLUE - Static variable in class org.simtk.util.ColorName

DARK_SLATE_GRAY - Static variable in class org.simtk.util.ColorName

DARK_SLATE_GRAY1 - Static variable in class org.simtk.util.ColorName

DARK_SLATE_GRAY2 - Static variable in class org.simtk.util.ColorName

DARK_SLATE_GRAY3 - Static variable in class org.simtk.util.ColorName

DARK_SLATE_GRAY4 - Static variable in class org.simtk.util.ColorName

DARK_SLATE_GREY - Static variable in class org.simtk.util.ColorName

DARK_TURQUOISE - Static variable in class org.simtk.util.ColorName

DARK_VIOLET - Static variable in class org.simtk.util.ColorName

DEEP_PINK - Static variable in class org.simtk.util.ColorName

DEEP_PINK1 - Static variable in class org.simtk.util.ColorName

DEEP_PINK2 - Static variable in class org.simtk.util.ColorName

DEEP_PINK3 - Static variable in class org.simtk.util.ColorName

DEEP_PINK4 - Static variable in class org.simtk.util.ColorName

DEEP_SKY_BLUE - Static variable in class org.simtk.util.ColorName

DEEP_SKY_BLUE1 - Static variable in class org.simtk.util.ColorName

DEEP_SKY_BLUE2 - Static variable in class org.simtk.util.ColorName

DEEP_SKY_BLUE3 - Static variable in class org.simtk.util.ColorName

DEEP_SKY_BLUE4 - Static variable in class org.simtk.util.ColorName

DEFAULT_COLOR_SCHEME - Static variable in class org.simtk.moleculargraphics.cartoon.DefaultColorScheme

defaultColor - Variable in class org.simtk.moleculargraphics.cartoon.ToonColors

DefaultColorScheme - Class in org.simtk.moleculargraphics.cartoon

DefaultColorScheme() - Constructor for class org.simtk.moleculargraphics.cartoon.DefaultColorScheme

DEGREES - Static variable in class org.simtk.geometry3d.Angle.Units

DEGREES_PER_RADIAN - Static variable in class org.simtk.geometry3d.Angle

deleteObserver(Observer) - Method in class org.simtk.gui.ProgressManager

deleteObserver(Observer) - Method in interface org.simtk.mvc.ObservableInterface

deleteObservers() - Method in class org.simtk.gui.ProgressManager

deleteObservers() - Method in interface org.simtk.mvc.ObservableInterface

designations - Variable in enum org.simtk.molecularstructure.nucleicacid.BasePair.BondOrientation

designations - Variable in enum org.simtk.molecularstructure.nucleicacid.BasePair.EdgeType

designations - Variable in enum org.simtk.molecularstructure.SecondaryStructureClass.SourceType

det() - Method in class Jama.LUDecomposition

Determinant

det() - Method in class Jama.Matrix

Matrix determinant

diagram - Variable in class org.simtk.toon.secstruct.SecondaryStructureCanvas

DIM_GRAY - Static variable in class org.simtk.util.ColorName

DIM_GREY - Static variable in class org.simtk.util.ColorName

direction - Variable in class org.simtk.geometry3d.Line3D

displayableStructures() - Method in class org.simtk.molecularstructure.BiopolymerClass

displaySourceTypes - Variable in class org.simtk.molecularstructure.MoleculeClass

disposeSplash() - Static method in class org.simtk.splashscreen.SplashWindow

distance(MathVector) - Method in interface org.simtk.geometry3d.MathVector

distance(MathVector) - Method in class org.simtk.geometry3d.MathVectorClass

distance(Vector3D) - Method in class org.simtk.geometry3d.Plane3D

Distance between a point and a plane

distance - Variable in class org.simtk.moleculargraphics.cartoon.vtkGrowPointsFilter

distance(Atom) - Method in interface org.simtk.molecularstructure.atom.Atom

distance(Atom) - Method in class org.simtk.molecularstructure.atom.AtomClass

distanceSquared(MathVector) - Method in interface org.simtk.geometry3d.MathVector

distanceSquared(MathVector) - Method in class org.simtk.geometry3d.MathVectorClass

DNA - Class in org.simtk.molecularstructure.nucleicacid

DNA(char) - Constructor for class org.simtk.molecularstructure.nucleicacid.DNA

DODGER_BLUE - Static variable in class org.simtk.util.ColorName

DODGER_BLUE1 - Static variable in class org.simtk.util.ColorName

DODGER_BLUE2 - Static variable in class org.simtk.util.ColorName

DODGER_BLUE3 - Static variable in class org.simtk.util.ColorName

DODGER_BLUE4 - Static variable in class org.simtk.util.ColorName

dot(MathVector) - Method in interface org.simtk.geometry3d.MathVector

dot(MathVector) - Method in class org.simtk.geometry3d.MathVectorClass

doubleHelixCylinder(Duplex) - Static method in class org.simtk.moleculargraphics.cartoon.DuplexCylinderActor

Given a set of base paired residues, construct cylinder geometry to represent them.

doubleHelixCylinder(Duplex) - Static method in class org.simtk.moleculargraphics.cartoon.NewDuplexCylinderActor

Given a set of base paired residues, construct cylinder geometry to represent them.

DoubleRing - Class in org.simtk.util

DoubleRing(int) - Constructor for class org.simtk.util.DoubleRing

doubleValue() - Method in class org.simtk.geometry3d.Angle

Duplex - Class in org.simtk.molecularstructure.nucleicacid

Duplex() - Constructor for class org.simtk.molecularstructure.nucleicacid.Duplex

DuplexCylinderActor - Class in org.simtk.moleculargraphics.cartoon

DuplexCylinderCartoon - Class in org.simtk.moleculargraphics.cartoon

DuplexCylinderCartoon() - Constructor for class org.simtk.moleculargraphics.cartoon.DuplexCylinderCartoon

DuplexResidueWedge - Class in org.simtk.moleculargraphics.cartoon

DuplexResidueWedge() - Constructor for class org.simtk.moleculargraphics.cartoon.DuplexResidueWedge

DuplexResidueWedge(double) - Constructor for class org.simtk.moleculargraphics.cartoon.DuplexResidueWedge