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.TH "tree-mean-lengths" "1" "Feb 2018" "" ""
.hy
.SH NAME
.PP
\f[B]tree-mean-lengths\f[R] - Compute the mean lengths for branches in
the given topology.
.SH SYNOPSIS
.PP
\f[B]tree-mean-lengths\f[R] [OPTIONS] \f[I]tree\f[R] \f[I]file1\f[R]
[\f[I]file2\f[R] \&...]
.SH DESCRIPTION
.PP
Compute the mean lengths for branches in the given topology.
.SH ALLOWED OPTIONS:
.TP
\f[B]-h\f[R], \f[B]\[en]help\f[R]
produce help message
.TP
\f[B]-T\f[R] \f[I]arg\f[R], \f[B]\[en]tree\f[R] \f[I]arg\f[R]
tree to re-root
.TP
\f[B]\[en]files\f[R] \f[I]arg\f[R]
tree samples to examine
.TP
\f[B]-s\f[R] \f[I]arg\f[R] (=0), \f[B]\[en]skip\f[R] \f[I]arg\f[R] (=0)
number of tree samples to skip
.TP
\f[B]-u\f[R] \f[I]arg\f[R], \f[B]\[en]until\f[R] \f[I]arg\f[R]
Read until this number of trees.
.TP
\f[B]\[en]ignore\f[R] \f[I]arg\f[R]
Comma-separated taxa to remove
.TP
\f[B]\[en]simple\f[R]
Ignore all branches not in the query tree
.TP
\f[B]-x\f[R] \f[I]arg\f[R] (=1), \f[B]\[en]subsample\f[R] \f[I]arg\f[R] (=1)
factor by which to sub-sample
.TP
\f[B]\[en]var\f[R]
report standard deviation of branch lengths instead of mean
.TP
\f[B]\[en]no-node-lengths\f[R]
ignore branches not in the specified topology
.TP
\f[B]\[en]safe\f[R]
Don\[cq]t die if no trees match the topology
.TP
\f[B]\[en]show-node-lengths\f[R]
Output special format
.TP
\f[B]-V\f[R], \f[B]\[en]verbose\f[R]
Output more log messages on stderr.
.SH REPORTING BUGS:
.PP
BAli-Phy online help: <http://www.bali-phy.org/docs.php>.
.PP
Please send bug reports to <bali-phy-users@googlegroups.com>.
.SH AUTHORS
Benjamin Redelings.