pxcolt1

Usage

Overview

Collapse edges with support below some threshold. If annotated Nexus, may require passing in the support identifier (-s). This will take a newick- or nexus-formatted tree from a file or STDIN. Output is written in newick format.

Options

-t, --treef=FILE

input tree file, STDIN otherwise

-l, --limit=DOUBLE

minimum support threshold as proportion (default = 0.5)

-o, --outf=FILE

output file, STOUT otherwise

-h, --help

display this help and exit

-V, --version

display version and exit

-C, --citation

display phyx citation and exit

Citation

Brown, Joseph W., Joseph F. Walker, and Stephen A. Smith. 2017. Phyx: phylogenetic tools for unix. Bioinformatics 33(12): 1886-1888. https://doi.org/10.1093/bioinformatics/btx063.