Hi Kevin,
Although diversitree was written in a modular and efficient way, it is
very challenging to make modifications to the code. Functions in the
package are usually very general and make it hard to understand their
role in the MCMC algorithm. My opinion is that it is better to use the
lik
)alsophila)cyatheaceae)))cyatheales)))monilophyte)euphyllophyte;"
Then you can use the function 'read.newick' in phytools followed by the
function 'collapse.singles'.
Please also note that the newick tree need to be in a single line (same
string).
Hope it helps,
*Daniel Caetano
Theoretical Biology)
processes and I also searched for something in 'ouch'.
Someone know a function that simulate such a process?
At the moment I am considering implementing the mvOU simulation using
the already implemented mvBM simulation in 'mvSLOUCH'.
Thanks for the help,
f elements equal to the number of
parameters in your full model. To find the MLE of your constrained
likelihood function you need to point to the free parameters in 'start'.
Try this, check if start has only "lambda1","mu1","q12":
fit.allcon <- find.mle(lik.allc
