NAME
showtree - View and/or convert phylogenetic trees in the terminal.
SYNOPSIS
showtree [OPTIONS] [treefile]
DESCRIPTION
View and/or convert phylogenetic trees in the terminal.
treefile is the filename of the for the file containing trees in PRIME format.
OPTIONS
- --help
-
Display help (this text).
- -V, --version
-
Print version and exit
- -e, --show-edgetimes
-
Show edge times
- -n, -show-nodetimes
-
Show node times
- -b, --show-edgeweights
-
Show edge weights (i.e. branch lengths)
- -x, --show-tot-edgetime
-
Show total edge time instead of tree
- -y, --show-tot-edgeweight
-
Show total edge weight instead of tree
- -c, --read-edge-times-after-colon
-
Read edge times after colon
- -p, --convert-and-output-tree-in-prime-format
-
Convert and output tree in PRIME format
- -i, --show-id
-
Show ID (only valid together with -p)
- -S, --read-tree-from-stdin
-
Read tree from STDIN (no <treefile> nor <tree> needed)
- -f, --format asciidrawing|prime|newick|simplenewick
-
The output format. Default is asciidrawing. Output formats:
newick - convert and output tree in NEWICK format
simplenewick - Simple newick format, no branch lengths. This also enables reading of unbalanced trees.
prime - prime format
asciidrawing - an ascii drawing
- -t, --tree-number
-
Use the tree with this number. If not set all trees will be printed out.
- -t, --tree-number
-
Use the tree with this number. If not set all trees will be printed out.
EXIT STATUS
- 0
-
Successful program execution.
- 1
-
Some error occurred
URL
- The prime-phylo home page: http://prime.sbc.su.se
SEE ALSO
primeDTLSR(1), primeDLRS(1), primeGEM(1), chainsaw(1), reconcile(1), reroot(1), tree2leafnames(1), treesize(1)