Recombination in viruses

What is the impact of recombination on phylogenies?

What is the impact of recombination on phylogenies?

Testing for recombination

Tools for recombination detection look for signals of multiple trees.

Recombination detection as model comparison

Akaike information criterion

\[ \mathrm {AIC} =2k-2\ln({\hat {L}}) \]

\[ \mathrm {AICc} =\mathrm {AIC} +{\frac {2k^{2}+2k}{n-k-1}} \]

Recombination detection as model comparison

Recombination detection as model comparison

GARD

GARD pre-bake for mystery.fasta

http://datamonkey.org/gard/647666d11c35ba63bcef71da