NAME¶

tree-tool - Perform various operations on Newick trees.

SYNOPSIS¶

tree-tool tree-file [OPTIONS]

DESCRIPTION¶

Perform various operations on Newick trees.

GENERAL OPTIONS:¶

-h, --help

produce help message

-V, --verbose

Output more log messages on stderr.

MODIFICATION OPTIONS:¶

--prune arg

Comma-separated taxa to remove

--resolve

Comma-separated taxa to remove

--remove-root-branch

Remove single branch from root.

--remove-root-branches

Ensure root is not a tip.

--remove-knuckles

Remove degree-2 nodes.

--scale arg

Scale branch-lengths by factor

--strip-internal-names

Remove internal node names

--name-all-nodes

Add node names

OUTPUT OPTIONS:¶

--length

Report the total tree length

--diameter

Report the total tree length

REPORTING BUGS:¶

BAli-Phy online help: <http://www.bali-phy.org/docs.php>.

Please send bug reports to <bali-phy-users@googlegroups.com>.

AUTHORS¶

Benjamin Redelings.