draw-tree1

Usage

Overview

Draw NEWICK (and some other) formatted files.

Input options:

-h, –help

Produce help message

-W arg (=8.5), –width arg (=8.5)

Page width in inches

-H arg (=11), –height arg (=11)

Page height in inches

–file arg

predicates to examine

–output arg (=pdf)

Type of output to write: tree, topology, mtree, lengths, dot, ps, pdf, svg

–out arg

Output filename (without extension)

–full

Consider only full splits by collapsing any partial splits.

–iterations arg (=2)

Number of iterations for layout algorithm

–font-size arg (=10)

Font size for taxon names

–angle_iterations arg (=0)

Number of iterations for layout algorithm with small-angle penalties

–labels arg (=horizontal)

Are the names horizontal or angled?

–collapse

Give node lengths evenly to neighboring branches and zero the node lengths.

–layout arg (=graph)

Layout method: graph, equal-angle, equal-daylight, etc.

–greedy

For equal-daylight layout: take as much daylight as possible?

–tree-layout-initial

Start an energy layout with positions from the equal-angle layout - only for multifurcating trees

–no-shade

For equal-daylight layout: reject rotations that shade other groups?

–draw-clouds arg

Draw wandering-ranges in MC trees as clouds.

–seed arg

Random seed

–verbose

Output more log messages on stderr.

Reporting bugs:

BAli-Phy online help: ⟨http://www.bali-phy.org/docs.php⟩\c .

Please send bug reports to ⟨[email protected]⟩\c .