Man page - trees-bootstrap(1)
Packages contas this manual
- alignment-distances(1)
- alignment-max(1)
- bali-phy(1)
- tree-mean-lengths(1)
- mcon-tool(1)
- extract-ancestors(1)
- cut-range(1)
- alignment-indices(1)
- alignment-thin(1)
- stats-select(1)
- pickout(1)
- trees-consensus(1)
- alignment-gild(1)
- alignment-chop-internal(1)
- summarize-ancestors(1)
- draw-tree(1)
- bali-phy-pkg(1)
- mctree-mean-lengths(1)
- tree-tool(1)
- alignment-find(1)
- trees-bootstrap(1)
- alignment-translate(1)
- trees-distances(1)
- alignment-cat(1)
- statreport(1)
- bp-analyze(1)
- alignment-info(1)
- alignment-draw(1)
- alignments-diff(1)
- alignment-consensus(1)
- bali-subsample(1)
Package: bali-phy
apt-get install bali-phy
apt-get install bali-phy
Manuals in package:
Documentations in package:
Manual
| trees-bootstrap(1) | trees-bootstrap(1) |
NAME
trees-bootstrap - Compare support for partitions between different files.
SYNOPSIS
trees-bootstrap file1 [file2 ... ] –predicates predicate file [OPTIONS]
DESCRIPTION
Compare support for partitions between different files.
INPUT OPTIONS:
- -h, –help
- Produce help message.
- -s arg (=10%), –skip arg (=10%)
- Number of trees to skip.
- -u arg, –until arg
- Read until this number of trees.
- -m arg, –max arg
- Thin tree samples down to this number of trees.
- -x arg, –subsample arg
- Factor by which to sub-sample.
- –predicates arg
- Predicates to examine.
- –min-support arg (=0.1)
- Minimum value of predicates to consider interesting..
- -V, –verbose
- Output more log messages on stderr.
BLOCK BOOTSTRAP OPTIONS:
- –bootstrap
- Do block bootstrapping to get a CI on the posterior probabilities.
- –samples arg (=10000)
- Number of bootstrap samples.
- –pseudocount arg (=1)
- Extra 0/1 to add to bootstrap samples.
- –blocksize arg
- Block size to use in block boostrap.
- –seed arg
- Random seed.
REPORTING OPTIONS:
- –separation arg (=0)
- Only report trees/partitions if they differ by this many LODs
- –confidence arg (=0.95)
- Width of confidence intervals
- –LOD-table arg
- Write the partitions LOD10’s to a file.
REPORTING BUGS:
BAli-Phy online help: http://www.bali-phy.org/docs.php.
Please send bug reports to bali-phy-users@googlegroups.com.
AUTHORS
Benjamin Redelings.
| Feb 2018 |