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

H

H - Static variable in class edu.sdsc.mbt.util.Element

HBDialog - class edu.sdsc.sirius.dialogs.HBDialog.

HBDialog(JFrame, Manager, StructureViewer) - Constructor for class edu.sdsc.sirius.dialogs.HBDialog

HELIX_COLOR - Static variable in class edu.sdsc.mbt.viewables.StylesPreferences

Variables that define colors of the secondary structure elements.

HERMITE - Static variable in class edu.sdsc.mbt.viewers.GLViewerImpl.Interpolator

HN - Variable in class edu.sdsc.sirius.io.SideChain

HYDROPHOBIC_COLOR - Static variable in class edu.sdsc.sirius.viewers.SequenceViewerImpl.StyleManager

He - Static variable in class edu.sdsc.mbt.util.Element

Helix - class edu.sdsc.mbt.Helix.

Implements a StructureComponent container for Helix conformation (secondary structure) data.

Helix() - Constructor for class edu.sdsc.mbt.Helix

Creates a new Helix object.

HelixGeometry - class edu.sdsc.mbt.viewers.GLViewerImpl.HelixGeometry.

HelixGeometry is an SsGeometry container which, primarily, manages the geometry associated with an alpha-helix.

HelixGeometry() - Constructor for class edu.sdsc.mbt.viewers.GLViewerImpl.HelixGeometry

Constructs a HelixGeometry objects with default values for the number of facets, segments, and cross section style.

Hermite - class edu.sdsc.mbt.viewers.GLViewerImpl.Hermite.

The Hermite class contains capabilities for Hermite interpolation of points assumed to lie on curve.

Hermite() - Constructor for class edu.sdsc.mbt.viewers.GLViewerImpl.Hermite

Hermite(Vec3f[], float) - Constructor for class edu.sdsc.mbt.viewers.GLViewerImpl.Hermite

Hg - Static variable in class edu.sdsc.mbt.util.Element

HybridizationDialog - class edu.sdsc.sirius.dialogs.HybridizationDialog.

HybridizationDialog(JFrame, Manager, StructureViewer) - Constructor for class edu.sdsc.sirius.dialogs.HybridizationDialog

HydrogenBondComponent - class edu.sdsc.mbt.HydrogenBondComponent.

HydrogenBondComponent(Atom, Atom, String) - Constructor for class edu.sdsc.mbt.HydrogenBondComponent

HydrogenDialog - class edu.sdsc.sirius.dialogs.HydrogenDialog.

HydrogenDialog(JFrame, Manager, StructureViewer) - Constructor for class edu.sdsc.sirius.dialogs.HydrogenDialog

HydrogenEvent - class edu.sdsc.sirius.dialogs.HydrogenEvent.

HydrogenEvent(DisplayDialog) - Constructor for class edu.sdsc.sirius.dialogs.HydrogenEvent

hBondCutoff - Static variable in class edu.sdsc.mbt.StructureMap

hasMore() - Method in class edu.sdsc.mbt.StructureComponentIterator

Return true if the Iterator has more matches or false otherwise.

hasRibbon(Chain) - Method in class edu.sdsc.sirius.viewers.StructureViewer

Checks whether there is a ribbon associated with this chain.

hashCode() - Method in class edu.sdsc.mbt.Fragment

Return the hashCode for the Fragment.

hashCode() - Method in class edu.sdsc.mbt.viewers.StructureViewerImpl.vec.Vec3d

helixColor - Variable in class edu.sdsc.sirius.dialogs.PreferencesCache

helixThickness - Static variable in class edu.sdsc.mbt.viewables.StylesPreferences

helpURL - Static variable in class edu.sdsc.sirius.util.DataService

hideAll(boolean) - Method in class edu.sdsc.mbt.viewables.StructureStyles

Set the visibility state for the entire structure to false and then fire an event to all listeners.

hideSelected() - Method in class edu.sdsc.sirius.monitors.MonitorPanel

highlight(float[]) - Method in class edu.sdsc.mbt.viewers.GLViewerImpl.SsGeometry

Highlights the whole fragment with the given color.

highlightClosestResidue(float[], float[]) - Method in class edu.sdsc.mbt.viewers.GLViewerImpl.SsGeometry

Highlights the closest residue to the given point, with the given color.

highlightResidue(int, float[]) - Method in class edu.sdsc.mbt.viewers.GLViewerImpl.SsGeometry

Hightlights the portion of SS sorounding residue at index.

highlightResidueRegion(int, float[]) - Method in class edu.sdsc.mbt.viewers.GLViewerImpl.SsGeometry

Hightlights the portion of SS sorounding residue at index.

hold - Variable in class edu.sdsc.mbt.viewers.GLViewerImpl.GlGeometryViewer

hybridization - Variable in class edu.sdsc.mbt.Atom

Atomic orbital hybridization state.

hybridization - Variable in class edu.sdsc.sirius.dialogs.GeometryEvent