Dear R-sig-phylo,

I was wondering - is anyone aware of methods or models that can deal with 
traits that are have evolved seasonal discrete plasticity in some lineages, 
whereas in other lineages such seasonality has not evolved (and so traits 
evolve as a discrete character?). I’m helping a colleague who wants to estimate 
transition rates in a group of butterflies for particular color patterns.

I have been thinking that a workaround might be to code zero length terminal 
branches for lineages which have seasonal plasticity so that some of that 
information can be incorporated into ML reconstructions. Or to simply code two 
sets of characters for with ’season’ assumed to be homologous. Any ideas?

Jake Berv
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