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| Packages that use edu.sdsc.mbt.viewables | |
| Default Package | |
| edu.sdsc.mbt | |
| edu.sdsc.mbt.viewables | This package provides classes which enable molecular biology data to be represented as visible/renderable viewable objects, plus, this package defines a top-level StructureDocument object to encapsulate the complete state of these objects and properties. |
| edu.sdsc.mbt.viewers.GLViewerImpl | |
| edu.sdsc.sirius.dialogs | |
| edu.sdsc.sirius.util | |
| edu.sdsc.sirius.viewers | |
| edu.sdsc.sirius.viewers.TreeViewer | |
| edu.sdsc.sirius.workbench | |
| Classes in edu.sdsc.mbt.viewables used by Default Package | |
| StylesPreferences
This class is a storage and manipulation utility to handle viewing options set through PreferencesDialog. |
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| Classes in edu.sdsc.mbt.viewables used by edu.sdsc.mbt | |
| StructureStyles
Stores and retrieves styles associated with viewable objects of a Structure (typically one StructureStyle object is assocated with each Structure by a StructureDocument class). |
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| Classes in edu.sdsc.mbt.viewables used by edu.sdsc.mbt.viewables | |
| AtomColor
This interface defines how all AtomColor implementation classes should generate a color for a given atomIndex+Atom. |
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| AtomColorByCharge
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| AtomColorByElement
This class implements the AtomColor interface by applying a color to the given atomIndex+Atom by using the ElementColor class. |
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| AtomColorUniform
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| AtomLabel
This interface defines how all AtomLabel implementation classes should generate a String label for a given Atom. |
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| AtomLabelByAtomCompound
This class implements the AtomLabel interface by producing a string label from the Atom record's compound. |
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| AtomLabelByAtomElement
This class implements the AtomLabel interface by producing a string label from the Atom record's element. |
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| AtomLabelByAtomName
This class implements the AtomLabel interface by producing a string label from the Atom record's name. |
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| AtomLabelByChainId
This class implements the AtomLabel interface by producing a string label from the Atom record's chain_id. |
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| AtomLabelNone
This class implements the AtomLabel interface by producing a null string label. |
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| AtomRadius
This interface defines how all AtomRadius implementation classes should generate a radius for a given atomIndex+Atom. |
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| AtomRadiusByConstant
This class implements the AtomRadius interface by applying a radius to the given an Atom by using the radius of the bond. |
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| AtomRadiusByCpk
This class implements the AtomRadius interface by applying a radius to the given an Atom by using the ElementRadius class. |
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| AtomRadiusByScaledCpk
This class implements the AtomRadius interface by applying a radius to the given an Atom by using the ElementRadius class. |
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| BondColor
This interface defines how all BondColor implementation classes should fill in a color for a given atomIndex+Atom. |
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| BondColorByAtomColor
This class implements the BondColor interface by applying a color to the given Bond by using the Atom colors. |
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| BondColorByElement
This class implements the BondColor interface by applying a color to the given bondIndex+Bond by using the ElementColor class. |
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| BondForm
This interface defines how all BondForm implementation classes should fill in a form for a given bondIndex. |
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| BondFormOrder
Implements the BondForm interface as a "Order" bond type. |
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| BondFormSimple
Implements the BondForm interface as a "Simple" bond type. |
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| BondFormSplit
Implements the BondForm interface as a "Split" bond type. |
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| BondLabel
This interface defines how all BondLabel implementation classes should generate a String label for a given Bond. |
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| BondLabelByDistance
This class implements the BondLabel interface by producing a string label based upon the Bond atom's distance.. |
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| BondLabelNone
This class implements the BondLabel interface by producing a null string label. |
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| BondRadius
This interface defines how all BondRadius implementation classes should provide a radius for a given Bond. |
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| BondRadiusAsStick
This class implements the BondRadius interface by applying a fixed radius representing the width IN PIXELS of the wireframe bond. |
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| BondRadiusAsWire
This class implements the BondRadius interface by applying a fixed radius representing the width IN PIXELS of the wireframe bond. |
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| BondRadiusByAtomRadius
This class implements the BondRadius interface by applying a radius to the given Bond by using the AtomRadius class. |
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| BondRadiusByScaledAtomRadius
This class implements the BondRadius interface by applying a radius to the given Bond by using the AtomRadius class. |
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| ChainColor
This interface defines how all ChainColor implementation classes should generate a color for a given Chain. |
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| ChainColorById
This class implements the ChainColor interface by applying a color to the given Chain by using its chainId. |
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| ColorMap
This interface defines how all ColorMap implementation classes should generate a color for a given normalized float (0.0-1.0). |
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| FragmentColor
This interface defines how all FragmentColor implementation classes should generate a color for a given Fragment. |
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| FragmentColorByType
This class implements the FragmentColor interface by applying a color to the given Fragment by using its Conformation type. |
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| FragmentForm
This interface defines how all FragmentForm implementation classes should generate a style for a given Fragment. |
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| FragmentFormCartoon
This class implements the FragmentForm interface by applying a secondary structure cartoon style. |
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| FragmentFormCylinder
This class implements the FragmentForm interface by applying a cylinder style. |
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| FragmentFormLadder
This class implements the FragmentForm interface by applying a secondary structure ladder style. |
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| FragmentFormRibbon
This class implements the FragmentForm interface by applying a ribbon style. |
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| FragmentFormTube
This class implements the FragmentForm interface by applying a tube style. |
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| FragmentFormWireframe
This class implements the FragmentForm interface by applying a wireframe style. |
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| ResidueColor
This interface defines how all ResidueColor implementation classes should generate a color for a given Residue. |
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| ResidueColorByCharge
This class implements the ResidueColor interface by applying a color to the given Residue by using hydrophobicity. |
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| ResidueColorByElement
This class implements the ResidueColor interface by applying a color to the given Residue by using hydrophobicity. |
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| ResidueColorByHydrophobicity
This class implements the ResidueColor interface by applying a color to the given Residue by using hydrophobicity. |
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| ResidueColorByType
This class implements the ResidueColor interface by applying a color to the given Residue by its nature (a color scheme similar to that used by BioEdit). |
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| ResidueColorDefault
This class implements the ResidueColor interface by applying a color to the given Residue by using hydrophobicity. |
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| ResidueColorScaled
This class implements the ResidueColor interface by applying a color to the given Residue by using hydrophobicity. |
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| ResidueColorUniform
This class implements the ResidueColor interface by applying a color to the given Residue by using hydrophobicity. |
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| RibbonColor
This interface defines how all ResidueColor implementation classes should generate a color for a given Residue. |
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| RibbonColorDefault
This class implements the ResidueColor interface by applying a color to the given Residue by using hydrophobicity. |
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| RibbonColorUniform
This class implements the ResidueColor interface by applying a color to the given Residue by using hydrophobicity. |
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| StructureDocument
This class implements the top-level container document for one or more Structure objects. |
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| StructureStyles
Stores and retrieves styles associated with viewable objects of a Structure (typically one StructureStyle object is assocated with each Structure by a StructureDocument class). |
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| StructureStylesEvent
An event generated when changes are made to a StructureStyles object. |
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| StructureStylesEventListener
Properties, data, or the organizational structure of data changed. |
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| Classes in edu.sdsc.mbt.viewables used by edu.sdsc.mbt.viewers.GLViewerImpl | |
| StructureStyles
Stores and retrieves styles associated with viewable objects of a Structure (typically one StructureStyle object is assocated with each Structure by a StructureDocument class). |
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| Classes in edu.sdsc.mbt.viewables used by edu.sdsc.sirius.dialogs | |
| StructureDocument
This class implements the top-level container document for one or more Structure objects. |
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| Classes in edu.sdsc.mbt.viewables used by edu.sdsc.sirius.util | |
| StructureDocument
This class implements the top-level container document for one or more Structure objects. |
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| StylesPreferences
This class is a storage and manipulation utility to handle viewing options set through PreferencesDialog. |
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| Classes in edu.sdsc.mbt.viewables used by edu.sdsc.sirius.viewers | |
| StructureDocument
This class implements the top-level container document for one or more Structure objects. |
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| StructureDocumentEvent
An event generated when structural changes are made to a StructureDocument. |
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| StructureStyles
Stores and retrieves styles associated with viewable objects of a Structure (typically one StructureStyle object is assocated with each Structure by a StructureDocument class). |
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| StructureStylesEvent
An event generated when changes are made to a StructureStyles object. |
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| StructureStylesEventListener
Properties, data, or the organizational structure of data changed. |
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| Classes in edu.sdsc.mbt.viewables used by edu.sdsc.sirius.viewers.TreeViewer | |
| StructureDocumentEvent
An event generated when structural changes are made to a StructureDocument. |
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| StructureStylesEvent
An event generated when changes are made to a StructureStyles object. |
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| StructureStylesEventListener
Properties, data, or the organizational structure of data changed. |
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| Classes in edu.sdsc.mbt.viewables used by edu.sdsc.sirius.workbench | |
| StructureDocument
This class implements the top-level container document for one or more Structure objects. |
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