*******************************************************************
*****************                               *******************
*****************           nhPhyML             *******************
*****************                               *******************
*****************                               *******************
*****************       Bastien Boussau         *******************
*****************                               *******************
***************** boussau@biomserv.univ-lyon1.fr*******************
*****************                               *******************
*******************************************************************
___________________________________________________________________


*****************README FOR THE EXEMPLE DIRECTORY******************

In this directory you can find a sequence file, a tree file, and files resulting from a run of nhPhyML.
The command line that was used to build a phylogeny using these sequences and this tree was:


nhPhyml -sequences=Exemple.phy -tree=Exemple.tree -rates=6 -alpha=e -tstv=e -eqfreq=lim -numeqfreq=5 -topology=e