NAME

       bp_taxonomy2tree - Building a taxonomic tree based on the full lineages of a set of
       species names

DESCRIPTION

       This scripts looks up the provided species names in the NCBI Taxonomy database, retrieves
       their full lineage and puts them in a Newick taxonomic tree displayed on screen.

         bp_taxonomy2tree.pl -s Orangutan -s Gorilla -s Chimpanzee -s Human
         bp_taxonomy2tree.pl -s Orangutan -s Gorilla -s Chimpanzee -s "Homo Sapiens"

       Can also provide -d to specify the directory to store index files in, -o to specify the
       location of your NCBI nodes file, and -a for the NCBI names file.  Or the option -e to use
       the web-based Entrez taxonomy database if you do not have the NCBI flatfiles installed.

       This script requires that the bioperl-run pkg be also installed.

       Providing the nodes.dmp and names.dmp files from the NCBI Taxonomy dump (see
       Bio::DB::Taxonomy::flatfile for more info) is only necessary on the first time running.
       This will create the local indexes and may take quite a long time.  However once created,
       these indexes will allow fast access for species to taxon id OR taxon id to species name
       lookups.

AUTHOR - Gabriel Valiente, reimplemented by Sendu Bala

       Email valiente@lsi.upc.edu Email bix@sendu.me.uk