The Bayesian kitchen

Coming back the Microsporidia example, the LG model does not just give an artifactual position for Microsporidia. It also gives an estimate...

As I mentioned earlier, classical amino-acid replacement matrices indirectly encode site-specific amino-acid preferences in their first-ord...

As we have seen, a fundamental consequence of site-specific selective constraints is that the number of amino-acids allowed at each site is...

In my last post , I argued that classical amino-acid replacement matrices do not faithfully describe the long-term evolutionary process at...

Just a side remark: in my last post, I pointed out that classical amino-acid replacement matrices implicitly encode site-specific selection...

There is a catch in my argument about the  double standards   of some of the current phylogenetic models, concerning rate- versus pattern-h...

Nobody today would publish a phylogeny that has been inferred using a model that does not account for rate variation across sites, at least...

I gave a phyloseminar last week, on the problem of dealing with patter-heterogeneity across sites in phylogenetic inference. I find this i...

This blog has been silent for such a long time (two years…). But there are quite a few things I would like to share with you, concerning ...