Re: [R-sig-phylo] rooting multiple trees

Hi Silvia, Check the help page of root(): it says the tree is unrooted before before being rooted. So your 2nd output is as expected. See the options of this function to resolve the root. For the 1st method, I think you should not do unclass(). best, Emmanuel -Original Message- From:

[R-sig-phylo] comp.gee not converging

Hi everyone, I have a problem with the compar.gee function when ruuning a phylogenetic logistic regression with the following error message: Error in gee(binary.y ~ X2.1 + binary.X3, c(1, 1, 1, 1, 1, 1, 1, 1, 1, : Cgee: error: logistic model for probability has fitted value very close to 1.