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

U

unconsolidate(Consolidate.ConsolidateDescriptor, MutableTree, boolean) - Static method in class phylonet.tree.util.Consolidate

This method undoes the effects of a prior consolidation.

union(NetworkCluster<T>) - Method in class phylonet.network.characterization.NetworkCluster

This method combines leaves of this cluster and nc.

UNKNOWN - Static variable in class phylonet.sequence.io.PlainXReader

update() - Method in class phylonet.app.view.datum.ADatumView

Updates this view element based the current state of the associated ADatum.

update() - Method in class phylonet.app.view.datum.BatchDatumView

update() - Method in class phylonet.app.view.datum.HGTDatumView

update() - Method in class phylonet.app.view.datum.NetworkDatumView

update() - Method in class phylonet.app.view.datum.SequenceAlignmentDatumView

update() - Method in class phylonet.app.view.datum.TreeDatumView

updateActions() - Method in class phylonet.app.controller.PhyloNetAppController

Updates the actions belonging to this controller.

updateData() - Method in class phylonet.app.tool.AParamsDialog

Updates any model-dependent elements of this dialog box.

updateData() - Method in class phylonet.app.tool.charnet.CharnetParamsDialog

updateData() - Method in class phylonet.app.tool.cmpnets.CmpnetsParamsDialog

updateData() - Method in class phylonet.app.tool.component.ExtendableComboBoxList

Updates the data in this list of combo-boxes based on the supplied model.

updateData() - Method in class phylonet.app.tool.component.PhyloComboBox

Updates the data in this combo box to the set of data satisfied by its criterion.

updateData() - Method in class phylonet.app.tool.countcoal.CountCoalParamsDialog

updateData() - Method in class phylonet.app.tool.inferst.InferSTParamsDialog

updateData() - Method in class phylonet.app.tool.lca.LCAParamsDialog

updateData() - Method in class phylonet.app.tool.mast.MASTParamsDialog

updateData() - Method in class phylonet.app.tool.netpars.NetparsParamsDialog

updateData() - Method in class phylonet.app.tool.recomp.RECOMPParamsDialog

updateData() - Method in class phylonet.app.tool.rf.RFParamsDialog

updateData() - Method in class phylonet.app.tool.riatahgt.RiataHGTParamsDialog

updateEnabled() - Method in class phylonet.app.tool.APhyloTool

Enables or disables this tool, allowing or disallowing its selection in GUI menus, based on criteria specified by the extending class.

updateEnabled() - Method in class phylonet.app.tool.charnet.CharnetTool

updateEnabled() - Method in class phylonet.app.tool.cmpnets.CmpnetsTool

updateEnabled() - Method in class phylonet.app.tool.countcoal.CountCoalTool

updateEnabled() - Method in class phylonet.app.tool.inferst.InferSTTool

updateEnabled() - Method in class phylonet.app.tool.lca.LCATool

updateEnabled() - Method in class phylonet.app.tool.mast.MastTool

updateEnabled() - Method in class phylonet.app.tool.netpars.NetparsTool

updateEnabled() - Method in class phylonet.app.tool.recomp.RecompTool

updateEnabled() - Method in class phylonet.app.tool.rf.RFTool

updateEnabled() - Method in class phylonet.app.tool.riatahgt.RIATAHGTTool

updateMaxKey(N) - Method in class phylonet.heaps.BinaryMaxHeap

updateMaxKey(double) - Method in class phylonet.heaps.MaxDoubleHeap

updateMaxKey(N) - Method in class phylonet.heaps.MaxHeap

Change the key associated with the object that is currently at the top of the heap.

updateMaxKey(int) - Method in class phylonet.heaps.MaxIntHeap

updateMinKey(N) - Method in class phylonet.heaps.BinaryMinHeap

updateMinKey(N) - Method in class phylonet.heaps.MinFibonacciHeap

This operation is not supported on the Fibonacci Heap.

updateMinKey(N) - Method in class phylonet.heaps.MinHeap

Change the key associated with the object that is currently at the top of the heap.