Uses of Interface
cytoscape.layout.CyLayoutAlgorithm

Packages that use CyLayoutAlgorithm

cytoscape	Core Cytoscape Classes.
cytoscape.actions	UI classes that are attached to menu items in the menu or tool bar of the window.
cytoscape.data.readers	Reader classes for the basic data types in cytoscape.data.
cytoscape.ding
cytoscape.layout	Classes providing some kind of graph layout functionality.
cytoscape.layout.algorithms
cytoscape.layout.ui
cytoscape.view	Classes that provide a window to display a graph and UI components connected to that window, such as the menus.

Uses of CyLayoutAlgorithm in cytoscape

Methods in cytoscape with parameters of type CyLayoutAlgorithm

static CyNetworkView	Cytoscape.createNetworkView(CyNetwork network, String title, CyLayoutAlgorithm layout) Creates a CyNetworkView, but doesn't do anything with it.
static CyNetworkView	Cytoscape.createNetworkView(CyNetwork network, String title, CyLayoutAlgorithm layout, VisualStyle vs) Creates a CyNetworkView that is placed placed in a given visual style and rendered with a given layout algorithm.

Uses of CyLayoutAlgorithm in cytoscape.actions

Methods in cytoscape.actions with parameters of type CyLayoutAlgorithm

static void	LoadNetworkTask.loadFile(File file, boolean skipMessage, CyLayoutAlgorithm layoutAlgorithm) Load a network from a file.
static void	LoadNetworkTask.loadURL(URL u, boolean skipMessage, CyLayoutAlgorithm layoutAlgorithm) Load a network from a url.

Uses of CyLayoutAlgorithm in cytoscape.data.readers

Methods in cytoscape.data.readers that return CyLayoutAlgorithm

CyLayoutAlgorithm	XGMMLReader.getLayoutAlgorithm() getLayoutAlgorithm is called to get the Layout Algorithm that will be used to layout the resulting graph.
CyLayoutAlgorithm	GraphReader.getLayoutAlgorithm() Returns the CyLayoutAlgorithm used to layout the graph
CyLayoutAlgorithm	GMLReader.getLayoutAlgorithm() getLayoutAlgorithm is called to get the Layout Algorithm that will be used to layout the resulting graph.
CyLayoutAlgorithm	AbstractGraphReader.getLayoutAlgorithm() Return the CyLayoutAlgorithm used to layout the graph

Uses of CyLayoutAlgorithm in cytoscape.ding

Methods in cytoscape.ding with parameters of type CyLayoutAlgorithm

void	DingNetworkView.applyLayout(CyLayoutAlgorithm layout) DOCUMENT ME!
void	DingNetworkView.applyLayout(CyLayoutAlgorithm layout, CyNode[] nodes, CyEdge[] edges) DOCUMENT ME!
void	DingNetworkView.applyLayout(CyLayoutAlgorithm layout, CyNodeView[] nodes, CyEdgeView[] edges) DOCUMENT ME!
void	DingNetworkView.applyLayout(CyLayoutAlgorithm layout, int[] nodes, int[] edges) DOCUMENT ME!
void	DingNetworkView.applyLockedLayout(CyLayoutAlgorithm layout, CyNode[] nodes, CyEdge[] edges) DOCUMENT ME!
void	DingNetworkView.applyLockedLayout(CyLayoutAlgorithm layout, CyNodeView[] nodes, CyEdgeView[] edges) DOCUMENT ME!
void	DingNetworkView.applyLockedLayout(CyLayoutAlgorithm layout, int[] nodes, int[] edges) DOCUMENT ME!

Uses of CyLayoutAlgorithm in cytoscape.layout

Classes in cytoscape.layout that implement CyLayoutAlgorithm

class	AbstractLayout The AbstractLayout provides nice starting point for Layouts written for Cytoscape.
class	LayoutAdapter LayoutAdapter provides a *very* minimal interface to implement a layout algorithm.

Methods in cytoscape.layout that return CyLayoutAlgorithm

static CyLayoutAlgorithm	CyLayouts.getDefaultLayout() Get the default layout.
static CyLayoutAlgorithm	CyLayouts.getLayout(String name) Get the layout named "name".

Methods in cytoscape.layout that return types with arguments of type CyLayoutAlgorithm

static Collection<CyLayoutAlgorithm>

CyLayouts.getAllLayouts() Get all of the available layouts.

Methods in cytoscape.layout with parameters of type CyLayoutAlgorithm

static void	CyLayouts.addLayout(CyLayoutAlgorithm layout, String menu) Add a layout to the layout manager's list.
static String	CyLayouts.getMenuName(CyLayoutAlgorithm layout)
static void	CyLayouts.removeLayout(CyLayoutAlgorithm layout) Remove a layout from the layout maanger's list.

Constructors in cytoscape.layout with parameters of type CyLayoutAlgorithm

LayoutTask(CyLayoutAlgorithm layout, CyNetworkView view)
Creates the task.

Uses of CyLayoutAlgorithm in cytoscape.layout.algorithms

Classes in cytoscape.layout.algorithms that implement CyLayoutAlgorithm

class

GridNodeLayout The GridNodeLayout provides a very simple layout, suitable as the default layout for Cytoscape data readers.

Uses of CyLayoutAlgorithm in cytoscape.layout.ui

Methods in cytoscape.layout.ui with parameters of type CyLayoutAlgorithm

void	LayoutMenu.add(CyLayoutAlgorithm layout) DOCUMENT ME!
void	LayoutMenu.remove(CyLayoutAlgorithm layout) DOCUMENT ME!

Constructors in cytoscape.layout.ui with parameters of type CyLayoutAlgorithm

DynamicLayoutMenu(CyLayoutAlgorithm layout, boolean enabled)
Creates a new DynamicLayoutMenu object.

StaticLayoutMenu(CyLayoutAlgorithm layout, boolean enabled)
Creates a new StaticLayoutMenu object.

Uses of CyLayoutAlgorithm in cytoscape.view

Methods in cytoscape.view with parameters of type CyLayoutAlgorithm

void	CyNetworkView.applyLayout(CyLayoutAlgorithm layout) Applies the given layout to the entire CyNetworkView
void	CyNetworkView.applyLayout(CyLayoutAlgorithm layout, CyNode[] nodes, CyEdge[] edges) Applies the given layout to only the given Nodes and Edges.
void	CyNetworkView.applyLayout(CyLayoutAlgorithm layout, CyNodeView[] nodes, CyEdgeView[] edges) Applies the given layout to only the given NodeViews and EdgeViews.
void	CyNetworkView.applyLayout(CyLayoutAlgorithm layout, int[] nodes, int[] edges) Applies the given layout to only the given Nodes and Edges.
void	CyNetworkView.applyLockedLayout(CyLayoutAlgorithm layout, CyNode[] nodes, CyEdge[] edges) Applies the given layout to the entire CyNetworkView, but locks the given Nodes and Edges in place.
void	CyNetworkView.applyLockedLayout(CyLayoutAlgorithm layout, CyNodeView[] nodes, CyEdgeView[] edges) Applies the given layout to the entire CyNetworkView, but locks the given NodeViews and EdgeViews in place.
void	CyNetworkView.applyLockedLayout(CyLayoutAlgorithm layout, int[] nodes, int[] edges) Applies the given layout to the entire CyNetworkView, but locks the given Nodes and Edges in place.