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
- –root
-
Find a root position
- –resolve
-
Resolve polytomies
- –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 tree diameter
- –count-leaves
-
Show the number of leaves
- –count-nodes
-
Show the number of nodes
- –show-leaves
-
Show the leaf names
- –show-nodes
-
Show the node names
REPORTING BUGS:
BAli-Phy online help: ⟨http://www.bali-phy.org/docs.php⟩\c .
Please send bug reports to ⟨[email protected]⟩\c .
AUTHORS
Benjamin Redelings.