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

L

LAYER_HEIGHT - Static variable in class phylonet.riatahgt.viewer.TreeCanvas

LcaCmdLineTool - Class in phylonet.cmdline.tool

LcaCmdLineTool() - Constructor for class phylonet.cmdline.tool.LcaCmdLineTool

LCAParamsDialog - Class in phylonet.app.tool.lca

Represents the parameters dialog for the LCA tool.

LCAParamsDialog(Frame, PhyloNetAppModel) - Constructor for class phylonet.app.tool.lca.LCAParamsDialog

Instantiates a new parameters dialog for the LCA tool.

LCAResultsDialog - Class in phylonet.app.tool.lca

Represents a results dialog for the LCA tool.

LCAResultsDialog(Frame, Date, TreeDatum, List<Set<TNode>>, String, List<TNode>) - Constructor for class phylonet.app.tool.lca.LCAResultsDialog

Instantiates a new results dialog for the LCA tool.

LCATool - Class in phylonet.app.tool.lca

Represents the LCA tool for calculating the Least Common Ancestor of a set of nodes belonging to a certain tree.

LCATool(PhyloNetAppController) - Constructor for class phylonet.app.tool.lca.LCATool

Instantiates a new LCA tool.

leafSetsAgree(Tree, Tree) - Static method in class phylonet.tree.util.Trees

LEFT_COLUMN_WIDTH - Static variable in class phylonet.app.tool.inferst.InferSTParamsDialog

LIDAMath - Class in phylonet.util

This class provides various basic mathematical functions.

LineReader - Class in phylonet.rpt.io

This class provides an iterable implementation of the LineNumberReader.

LineReader(Reader, int) - Constructor for class phylonet.rpt.io.LineReader

LineReader(Reader) - Constructor for class phylonet.rpt.io.LineReader

LineReader(File) - Constructor for class phylonet.rpt.io.LineReader

LineReader(String) - Constructor for class phylonet.rpt.io.LineReader

Reads line from the file specified in the string.

linkToViewAndController(ADatum) - Method in class phylonet.app.controller.PhyloNetAppController

Creates and a view and controller for the given datum, and links them.

log(double, double) - Static method in class phylonet.util.LIDAMath

Computes log_base(x).

log10(double) - Static method in class phylonet.util.LIDAMath

Computes log₁₀(x)