Index

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 _
All Classes|All Packages

K

k1 - Variable in class de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.springembedder_1.SpringEmbedderAlgorithm

stiffness of spring between two connected nodes, see Graph Drawing p.

k2 - Variable in class de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.springembedder_1.SpringEmbedderAlgorithm

strength of the electrical repulsion between all nodes, see Graph Drawing p.

KEGG_ACCESS - org.FeatureSet

KEGG_ACCESS_ENH - org.FeatureSet

KEGG_ID_MISSING - de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.Gml2PathwayError

KEGG_REFERENCED_ID_MISSING - de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.Gml2PathwayError

KEGG_REFERENCED_TYPE_INVALID - de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.Gml2PathwayError

KEGG_REFERENCED_TYPE_MISSING - de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.Gml2PathwayError

KEGG_TYPE_INVALID - de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.Gml2PathwayError

KEGG_TYPE_MISSING - de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.Gml2PathwayError

KEGG_XML_Reader - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.kegg_xml

KEGG_XML_Reader() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.kegg_xml.KEGG_XML_Reader

KEGG_XML_Reader_g - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.kgml

KEGG_XML_Reader_g() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.kgml.KEGG_XML_Reader_g

KEGG_XML_ReaderPlugin - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.kegg_xml

KEGG_XML_ReaderPlugin - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.kgml

KEGG_XML_ReaderPlugin() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.kegg_xml.KEGG_XML_ReaderPlugin

KEGG_XML_ReaderPlugin() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.kgml.KEGG_XML_ReaderPlugin

KEGG2_XML_Reader - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.kegg_xml

KEGG2_XML_Reader() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.kegg_xml.KEGG2_XML_Reader

KEGG2_XML_Writer - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.kegg_xml

KEGG2_XML_Writer() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.kegg_xml.KEGG2_XML_Writer

KeggAccess - Class in org.vanted

Handle KEGG Access with regards to the user.

KeggAPIService - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.databases.kegg

A Kegg API REST accessor class It will retrieve (VATEND-)supported database objects from the KEGG database.

KeggAPIService() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.databases.kegg.KeggAPIService

KeggAPIServiceHelper - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.databases.kegg

This Kegg API Service helper will retrieve and cache results looked up from the Kegg public REST webservice.

KeggAttributePlugin - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type

KeggAttributePlugin() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggAttributePlugin

KeggBriteService - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.databases.kegg

Service class providing hierarchy information using the BRITE database from KEGG If a brite hierarchy is not present in the cache, it will be loaded and stored 1.

KeggDatabases - Enum in de.ipk_gatersleben.ag_nw.graffiti.plugins.databases.kegg

KeggExpressionConverter - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.dbe.kegg_expression

KeggExpressionConverter(ArrayList<KeggExpressionDataset>) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.dbe.kegg_expression.KeggExpressionConverter

KeggExpressionDatapoint - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.dbe.kegg_expression

KeggExpressionDatapoint(String, Double, Double, Double, Double, Double, Double, Double, Double, String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.dbe.kegg_expression.KeggExpressionDatapoint

KeggExpressionDataset - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.dbe.kegg_expression

KeggExpressionDataset(String, boolean, String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.dbe.kegg_expression.KeggExpressionDataset

KeggExpressionReader - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.dbe.kegg_expression

KeggExpressionReader(TableData) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.dbe.kegg_expression.KeggExpressionReader

KeggGmlHelper - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml

KeggGmlHelper() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.KeggGmlHelper

KeggGroupPartAttribute - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type

KeggGroupPartAttribute() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggGroupPartAttribute

KeggGroupPartAttribute(String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggGroupPartAttribute

KeggGroupPartAttribute(String, String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggGroupPartAttribute

KeggGroupPartAttributeEditor - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type

KeggGroupPartAttributeEditor(Displayable) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggGroupPartAttributeEditor

KeggHelper - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.kegg

HTML Parser

KeggHelper() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.kegg.KeggHelper

KeggId - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.datatypes

KeggId(String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.datatypes.KeggId

KeggIdAttribute - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type

KeggIdAttribute() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggIdAttribute

KeggIdAttribute(String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggIdAttribute

KeggIdAttribute(String, String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggIdAttribute

KeggNavigationToolbarCommand - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.kegg_bar

KeggNavigationToolbarCommand(KeggNavigationToolbarCommand.Command, EditorSession) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.kegg_bar.KeggNavigationToolbarCommand

Creates a Alignment Command, used for aligning nodes.

KeggNavigationToolbarCommand.Command - Enum in de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.kegg_bar

KeggPathwayEntry - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.kegg

KeggPathwayEntry(KeggPathwayEntry, boolean) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.kegg.KeggPathwayEntry

KeggPathwayEntry(InputStream) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.kegg.KeggPathwayEntry

KeggPathwayEntry(String, boolean, String, String[]) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.kegg.KeggPathwayEntry

KeggReactionIdAttribute - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type

KeggReactionIdAttribute() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggReactionIdAttribute

KeggReactionIdAttribute(String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggReactionIdAttribute

KeggReactionIdAttribute(String, String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggReactionIdAttribute

KeggReactionIdAttributeEditor - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type

KeggReactionIdAttributeEditor(Displayable) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggReactionIdAttributeEditor

KeggReactionTypeAttribute - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type

KeggReactionTypeAttribute() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggReactionTypeAttribute

KeggReactionTypeAttribute(String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggReactionTypeAttribute

KeggReactionTypeAttribute(String, String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggReactionTypeAttribute

KeggReactionTypeAttributeEditor - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type

KeggReactionTypeAttributeEditor(Displayable) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggReactionTypeAttributeEditor

KeggRelationSrcTgtAttribute - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type

KeggRelationSrcTgtAttribute() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggRelationSrcTgtAttribute

KeggRelationSrcTgtAttribute(String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggRelationSrcTgtAttribute

KeggRelationSrcTgtAttribute(String, String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggRelationSrcTgtAttribute

KeggRelationSubTypeAttribute - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type

KeggRelationSubTypeAttribute() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggRelationSubTypeAttribute

KeggRelationSubTypeAttribute(String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggRelationSubTypeAttribute

KeggRelationSubTypeAttribute(String, String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggRelationSubTypeAttribute

KeggRelationSubTypeAttributeEditor - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type

KeggRelationSubTypeAttributeEditor(Displayable) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggRelationSubTypeAttributeEditor

KeggRelationTypeAttribute - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type

KeggRelationTypeAttribute() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggRelationTypeAttribute

KeggRelationTypeAttribute(String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggRelationTypeAttribute

KeggRelationTypeAttribute(String, String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggRelationTypeAttribute

KeggRelationTypeAttributeEditor - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type

KeggRelationTypeAttributeEditor(Displayable) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggRelationTypeAttributeEditor

KeggService - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.kegg

KeggService() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.kegg.KeggService

KeggSoapAndPathwayService - Class in de.ipk_gatersleben.ag_nw.graffiti

KeggSoapAndPathwayService() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.KeggSoapAndPathwayService

KeggToolbarPlugin - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.kegg_bar

This plugin contains the standard editing tools.

KeggToolbarPlugin() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.kegg_bar.KeggToolbarPlugin

KeggTypeAttribute - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type

KeggTypeAttribute() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggTypeAttribute

KeggTypeAttribute(String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggTypeAttribute

KeggTypeAttribute(String, String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggTypeAttribute

KeggTypeAttributeEditor - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type

KeggTypeAttributeEditor(Displayable) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.KeggTypeAttributeEditor

KEY - Static variable in class org.graffiti.plugins.ios.importers.gml.sym

KEY_TAG - Static variable in interface org.jfree.data.xml.DatasetTags

The 'Key' element name.

KeyedObject - Class in org.jfree.data

A (key, object) pair.

KeyedObject(Comparable, Object) - Constructor for class org.jfree.data.KeyedObject

Creates a new (key, object) pair.

KeyedObjects - Class in org.jfree.data

A collection of (key, object) pairs.

KeyedObjects() - Constructor for class org.jfree.data.KeyedObjects

Creates a new collection (initially empty).

KeyedObjects2D - Class in org.jfree.data

A data structure that stores zero, one or many objects, where each object is associated with two keys (a 'row' key and a 'column' key).

KeyedObjects2D() - Constructor for class org.jfree.data.KeyedObjects2D

Creates a new instance (initially empty).

KeyedValue - Interface in org.jfree.data

A (key, value) pair.

KeyedValueComparator - Class in org.jfree.data

A utility class that can compare and order two KeyedValue instances and sort them into ascending or descending order by key or by value.

KeyedValueComparator(KeyedValueComparatorType, SortOrder) - Constructor for class org.jfree.data.KeyedValueComparator

Creates a new comparator.

KeyedValueComparatorType - Class in org.jfree.data

Uses to indicate the type of a KeyedValueComparator : 'by key' or 'by value'.

KeyedValueDataset - Interface in org.jfree.data

A dataset containing a single value.

KeyedValues - Interface in org.jfree.data

A collection of values where each value is associated with a key.

KeyedValues2D - Interface in org.jfree.data

An extension of the Values2D interface where a unique key is associated with the row and column indices.

KeyedValues2DDataset - Interface in org.jfree.data

A dataset containing (key, value) data items.

KeyedValuesDataset - Interface in org.jfree.data

A dataset containing (key, value) data items.

KeyHandler - Class in org.jfree.data.xml

A SAX handler for reading a key.

KeyHandler(RootHandler, ItemHandler) - Constructor for class org.jfree.data.xml.KeyHandler

Creates a new handler.

keyPressed(KeyEvent) - Method in class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.biomodels.BiomodelsPanel

keyReleased(KeyEvent) - Method in class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.biomodels.BiomodelsPanel

keys() - Method in class org.graffiti.options.GravistoPreferences

KeyToGroupMap - Class in org.jfree.data

A class that maps keys (instances of Comparable to groups.

KeyToGroupMap() - Constructor for class org.jfree.data.KeyToGroupMap

Creates a new map with a default group named 'Default Group'.

KeyToGroupMap(Comparable) - Constructor for class org.jfree.data.KeyToGroupMap

Creates a new map with the specified default group.

keyTyped(KeyEvent) - Method in class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.biomodels.BiomodelsPanel

KGML_EDITOR - org.Release

kgmlColor - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.datatypes

kgmlColor(Color) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.datatypes.kgmlColor

kgmlColor(String) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.datatypes.kgmlColor

KgmlEdMain - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.webstart

Contains the graffiti editor.

KgmlEdMain(boolean, String, String[]) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.webstart.KgmlEdMain

KGMLerrorWindow - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.gui

KGMLerrorWindow(Collection<Gml2PathwayWarningInformation>, Collection<Gml2PathwayErrorInformation>) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.gui.KGMLerrorWindow

kgmlFileVersionHint - Static variable in class de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.helper.DBEgravistoHelper

kgmlGraphicsType - Enum in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.datatypes

KGMLhelper - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml

KGMLhelper() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.KGMLhelper

kgmlNumber - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.datatypes

Used for specifying coordinates in the Kegg Graphics element

kgmlNumber(int) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.datatypes.kgmlNumber

KINETIC_LAW_ANNOTATION - Static variable in class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.sbml.SBML_Constants

KINETIC_LAW_FUNCTION - Static variable in class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.sbml.SBML_Constants

KINETIC_LAW_META_ID - Static variable in class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.sbml.SBML_Constants

KINETIC_LAW_NON_RDF_ANNOTATION - Static variable in class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.sbml.SBML_Constants

KINETIC_LAW_NOTES - Static variable in class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.sbml.SBML_Constants

KINETIC_LAW_SBOTERM - Static variable in class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.sbml.SBML_Constants

KineticLawHelper - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.sbml

KineticLawHelper(Graph, Map<String, List<Node>>) - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.sbml.KineticLawHelper

Constructor.

knownColors - Static variable in class org.AttributeHelper

KoEntry - Class in de.ipk_gatersleben.ag_nw.graffiti.plugins.databases.kegg

KoEntry() - Constructor for class de.ipk_gatersleben.ag_nw.graffiti.plugins.databases.kegg.KoEntry

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