Index

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T

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

toString() - Method in enum pt.ist.phylolib.cli.Command

toString() - Method in enum pt.ist.phylolib.cli.Data

toString() - Method in enum pt.ist.phylolib.cli.Option

Tree - Class in pt.ist.phylolib.data.tree

Represents a phylogenetic tree as a set of profiles identified by their ids and the edges that connect those profiles.

Tree(String[]) - Constructor for class pt.ist.phylolib.data.tree.Tree

Creates a phylogenetic tree corresponding to the given set of ids with no edges connecting them.

Tree(String[], List<Edge>) - Constructor for class pt.ist.phylolib.data.tree.Tree

Creates a phylogenetic tree corresponding to the given set of ids and edges.

TREE - pt.ist.phylolib.cli.Data

TREE - pt.ist.phylolib.cli.Option

TreeParser - Class in pt.ist.phylolib.data.tree

Responsible for parsing phylogenetic trees from and to Strings.

TreeParser() - Constructor for class pt.ist.phylolib.data.tree.TreeParser

type() - Method in class pt.ist.phylolib.cli.Parameters

type(String) - Method in enum pt.ist.phylolib.cli.Command

Gets the constructor of the specified type for this command.

type(String) - Method in enum pt.ist.phylolib.cli.Data

Gets the constructor of the specified processor type for this data type.

Types - Class in pt.ist.phylolib.reflection

Responsible for the use of reflection to search for types of a command or data.

Types() - Constructor for class pt.ist.phylolib.reflection.Types

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