NAME

       reroot - Compute a (new) root for the tree.

SYNOPSIS

       reroot [OPTIONS] tree-file

DESCRIPTION

       This program reroots the trees in <treefile> on an selected edge.

       The  default  is to output a random rerooting, but you can also choose to give the edge to
       put the root on, or an outgroup, or even all possible rootings.

       Output is written to stdout unless the exhaustive rooting is chosen. Then -o is giving the
       prefix for filenames to use and the results are written to <prefix>_<n>.tree, where <n> is
       the node number of the head of the edge.

       Warning! In the current implementation all time/length info is lost.

OPTIONS

       --help Display help

       -V, --version
              Print version and exit

       -S, --read-tree-from-stdin
              read tree from STDIN (no <tree-file>)

       -f, --input-format prime|inputxml
              The input format. Default is prime

       -e, --exhaustive
              Do all possible rootings

       -o, --output-file-prefix file-prefix
              The stem for filenames

       -n, --node-index INT
              Reroot tree at edge leading to node

       -g, --outgroup STRING
              Root tree at smallest subtree containing the  leaves  listed  in  a  commaseparated
              arguments

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),  showtree(1),
       tree2leafnames(1), treesize(1)