extract-ancestors - Extract and name ancestral sequences according to node- and branch- queries.

-narg, –nodesarg
              Newick tree with labelled ancestors

       -garg, –groupsarg
              File with named groups

       –nodes-minarg (=0.34)
              Minimum fraction to include a node.

       –groups-minarg (=0.34)
              Minimum fraction to include a group.

       Benjamin Redelings.

                                                    Feb 2018                                extract-ancestors(1)

       Extract and name ancestral sequences according to node- and branch- queries.

       Add named ancestral sequences to alignments where they are present:

              % extract-ancestors -A C1.P1.fastas -T C1.trees --nodes query.tree --groups query.tree

-h, –help
              produces help message

       -V, –verbose
              [=arg(=1)] Show more log messages on stderr.

-Aarg, –alignmentsarg
              File of alignment samples

       -Targ, –treesarg
              File of corresponding tree samples

       -xarg (=10), –subsamplearg (=10)
              factor by which to sub-sample trees

extract-ancestors - Extract and name ancestral sequences according to node- and branch- queries.

       BAli-Phy online help: <http://www.bali-phy.org/docs.php>.

       Please send bug reports to <bali-phy-users@googlegroups.com>.

extract-ancestors [OPTIONS]