From conrad.stack at gmail.com Sat Apr 30 01:03:47 2011 From: conrad.stack at gmail.com (Conrad Stack) Date: Fri, 29 Apr 2011 19:03:47 -0400 Subject: [Phyext-commits] Introduction to phyext Message-ID: phyext comprises code that was originally part of the RBrownie package. It's purpose is to read, write, and manipulate node-annotated phylogenetic trees in either newick or nexus format. It is based on the SIMMAP standard (1.0-1.5) where data is tucked into comments (e.g. [...]) inside of tree strings. Mesquite and BEAST use a similar format to export node-annotated trees. There are two major reason this code was split off from RBrownie: 1.) It is easier for me to manage and submit changes and 2.) more people will be able to use these functions without having to install the C++ prerequisites that RBrownie calls for. Some tutorials were written for phyext (when it was still part of RBrownie) which introduce some or phyext's main read/write/manipulate functions. They are on Brian O'Meara's website, under the RBrownie section: http://www.brianomeara.info/tutorials/brownie Please submit any questions or comments on the use of phyext! Thanks! -------------- next part -------------- An HTML attachment was scrubbed... URL: