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.TH "trees-bootstrap" "1" "Feb 2018" "" ""
.hy
.SH NAME
.PP
\f[B]trees-bootstrap\f[R] - Compare support for partitions between
different files.
.SH SYNOPSIS
.PP
\f[B]trees-bootstrap\f[R] \f[I]file1\f[R] [\f[I]file2\f[R] ...
] --predicates \f[I]predicate file\f[R] [OPTIONS]
.SH DESCRIPTION
.PP
Compare support for partitions between different files.
.SH INPUT OPTIONS:
.TP
\f[B]-h\f[R], \f[B]--help\f[R]
Produce help message.
.TP
\f[B]-s\f[R] \f[I]arg\f[R] (=10%), \f[B]--skip\f[R] \f[I]arg\f[R] (=10%)
Number of trees to skip.
.TP
\f[B]-u\f[R] \f[I]arg\f[R], \f[B]--until\f[R] \f[I]arg\f[R]
Read until this number of trees.
.TP
\f[B]-m\f[R] \f[I]arg\f[R], \f[B]--max\f[R] \f[I]arg\f[R]
Thin tree samples down to this number of trees.
.TP
\f[B]-x\f[R] \f[I]arg\f[R], \f[B]--subsample\f[R] \f[I]arg\f[R]
Factor by which to sub-sample.
.TP
\f[B]--predicates\f[R] \f[I]arg\f[R]
Predicates to examine.
.TP
\f[B]--min-support\f[R] \f[I]arg\f[R] (=0.1)
Minimum value of predicates to consider interesting..
.TP
\f[B]-V\f[R], \f[B]--verbose\f[R]
Output more log messages on stderr.
.SH BLOCK BOOTSTRAP OPTIONS:
.TP
\f[B]--bootstrap\f[R]
Do block bootstrapping to get a CI on the posterior probabilities.
.TP
\f[B]--samples\f[R] \f[I]arg\f[R] (=10000)
Number of bootstrap samples.
.TP
\f[B]--pseudocount\f[R] \f[I]arg\f[R] (=1)
Extra 0/1 to add to bootstrap samples.
.TP
\f[B]--blocksize\f[R] \f[I]arg\f[R]
Block size to use in block boostrap.
.TP
\f[B]--seed\f[R] \f[I]arg\f[R]
Random seed.
.SH REPORTING OPTIONS:
.TP
\f[B]--separation\f[R] \f[I]arg\f[R] (=0)
Only report trees/partitions if they differ by this many LODs
.TP
\f[B]--confidence\f[R] \f[I]arg\f[R] (=0.95)
Width of confidence intervals
.TP
\f[B]--LOD-table\f[R] \f[I]arg\f[R]
Write the partitions LOD10\[aq]s to a file.
.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.