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