Hello,
I am trying to estimate transition rate parameters for simulated data using
fitDiscrete in geiger. The data was simulated on an ultrametric phylogeny using
sim.char. I've set the q matrix based on estimated transition parameters from a
binary trait, on the same phylogeny where I now aim
Hi Alejandro,
Probably your simulation involved no changes from the root state; take a
look at fcare values. If no transitions are observed in the data, the
routine cannot estimate a rate at which transitions occur. Another way to
interpret the error message is branch lengths are too short
