Usage

The main features of CSUBST include:

• Error-corrected rate of protein convergence with null expectation obtained by:
• Empirical or mechanistic codon substitution model
• Urn sampling from site-wise substitution frequencies (experimental)
• Flexible specification of "foreground" lineages and its comparison with - neighboring branches
• Heuristic detection of higher-order convergence involving more than two branches
• Simulated sequence evolution under specified scenarios of convergent evolution
• Convergent substitution mapping to protein structure