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

V

v - Variable in class statalign.model.subst.SubstitutionModel

The rate matrix must be diagonalized and represented in a v d w product, where d is a diagonal matrix

value - Variable in class statalign.postprocess.plugins.structalign.StructAlignTraceParameters.PlottableParameter

valueChanged(ListSelectionEvent) - Method in class statalign.postprocess.gui.InputGUI

It invokes the list listener when a value changed.

valueOf(String) - Static method in enum statalign.io.input.plugins.NewickReader.FormatExceptType

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum statalign.utils.Libraries

Returns the enum constant of this type with the specified name.

values() - Static method in enum statalign.io.input.plugins.NewickReader.FormatExceptType

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum statalign.utils.Libraries

Returns an array containing the constants of this enum type, in the order they are declared.

VERBOSE - Static variable in class statalign.base.Utils

version - Static variable in class statalign.StatAlign

version - Variable in enum statalign.utils.Libraries

vertex - Variable in class statalign.base.Tree

The array of vertices of the tree.

Vertex - Class in statalign.base

This is a vertex of the tree.

Vertex(Tree) - Constructor for class statalign.base.Vertex

Vertex(Vertex) - Constructor for class statalign.base.Vertex

VerticalPhylogramTreeView - Class in statalign.postprocess.gui.treeviews

The graphical interface for showing the current tree.

VerticalPhylogramTreeView() - Constructor for class statalign.postprocess.gui.treeviews.VerticalPhylogramTreeView

VisualDistance - Class in statalign.postprocess.plugins

VisualDistance() - Constructor for class statalign.postprocess.plugins.VisualDistance

visX - Variable in class statalign.postprocess.gui.CNetworkView

visX - Variable in class statalign.postprocess.gui.treeviews.NetworkTreeView

visY - Variable in class statalign.postprocess.gui.CNetworkView

visY - Variable in class statalign.postprocess.gui.treeviews.NetworkTreeView

vonMises - Class in statalign.model.ext.plugins.structalign

vonMises() - Constructor for class statalign.model.ext.plugins.structalign.vonMises

vonMisesFisher - Class in statalign.model.ext.plugins.structalign

vonMisesFisher() - Constructor for class statalign.model.ext.plugins.structalign.vonMisesFisher

Vt - Class in statalign.model.subst.plugins

Implements the Müller-Vingron substitution model, see also http://www.ncbi.nlm.nih.gov/pubmed/11382360

Vt() - Constructor for class statalign.model.subst.plugins.Vt

Constructor used when instantiation is necessary.