ALL_DISTS(1) - Linux man page online | User commands

Given a tree in Newick (*.nh) format, report distances.

Chapter

May 2016

ALL_DISTS(1) User Commands ALL_DISTS(1)

NAME

all_dists - Given a tree in Newick (*.nh) format, report distances

DESCRIPTION

Given a tree in Newick (*.nh) format, report distances between all pairs of leaves. If multiple files are given, then distances are computed by averaging across models, and sta‐ tistics describing the errors in the estimates are reported (can be useful for bootstrap‐ ping; see 'phyloBoot --dump-mods').

USAGE

all_dists <tree.nh> [<tree2.nh> <tree3.nh>...]

OPTIONS

--mod, -m Read from tree model (*.mod) file(s) instead of Newick file. --tree, -t <file>|<string> Use leaf names from given tree. Useful when primary files use numbers rather than names. --help, -h Print this help message.

all_dists 1.4 May 2016 ALL_DISTS(1)

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