Software:

• GRAPPA, Genome Rearrangement Analysis under Parsimony and other Phylogenetic Algorithms. GRAPPA is an open source software package for reconstructing phylogenies from gene order data.
• Recursive-Iterative-DCM3 (Rec-I-DCM3). This software will be released in an open source form through the CIPRES project web page. For its current version, see Usman Roshan's Rec-I-DCM3 web page.