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)