Chapter 3, Table 3:
The software for the first entry is not longer available at http://aba.nbcr.net/
The URL at which it can now be downloaded is: http://nbcr.sdsc.edu/euler/aba_v1.0/
Chapter 3, Table 3:
The QOMA software entry should have as reference (2nd column): Zhang and Kahveci, 2006 instead of Sze, Lu & Yang, 2006.
Chapter 16, page 533
The third file listed, 2000-HIV-subtype.nex should be 2000-HIV-subtype.fsa
Philippe Lemey
A Practical Approach to phylogenetic analysis and hypothesis testing
Second Edition