NAME

chainsaw - Cut a gene tree based on a reconciliation

SYNOPSIS

chainsaw [OPTIONS] reconciled-gene-tree species-tree

DESCRIPTION

reconciled-gene-tree is the filename of the file containing trees in PRIME format. Notice that the node id is optional and if left out all species nodeswill be used recursively.

species-tree is the species tree

OPTIONS

--help

Display help (this text).

-V, --version

Print version and exit

-g, --guest-tree-format primeOrHybrid|inputxml

The input format. Default is primeOrHybrid

-h, --host-tree-format primeOrHybrid|inputxml

The input format of the host tree. Default is primeOrHybrid

-x, --node-name=STRING

A named species node to cut at

-i, --node-id=INT

The numerical id of a species node to cut at

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), showtree(1), reconcile(1), reroot(1), tree2leafnames(1), treesize(1)