Index

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A

add(Edge) - Method in class pt.ist.phylolib.data.tree.Tree

Adds a given edge to this tree.

Algorithm - Class in pt.ist.phylolib.command.algorithm

Responsible for calculating a phylogenetic tree from a distance matrix.

Algorithm() - Constructor for class pt.ist.phylolib.command.algorithm.Algorithm

ALGORITHM - pt.ist.phylolib.cli.Command

ArgumentException - Exception in pt.ist.phylolib.exception

Wraps all exceptions derived from command line arguments related issues.

ArgumentException(String) - Constructor for exception pt.ist.phylolib.exception.ArgumentException

Arguments - Class in pt.ist.phylolib.cli

Represents the parsed arguments of the program as commands and respective parameters.

Arguments() - Constructor for class pt.ist.phylolib.cli.Arguments

Asymmetric - Class in pt.ist.phylolib.data.matrix

Responsible for parsing distance matrices from and to Strings in an asymmetric format.

Asymmetric() - Constructor for class pt.ist.phylolib.data.matrix.Asymmetric

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