[R-sig-phylo] Deltran parsimony in R

2016-11-07 Thread Martin Hughes
Dear everyone, Is there any straight forward way to do deltran specific parsimony ancestral character state reconstruction in R? I already know about using Phangorn for MPR and acctran. The function fitch.mvsl in the package mvSLOUCH may be useable but the documentation for the output of that

[R-sig-phylo] How to combine MCMC results from BiSSE analyses based on multiple trees?

2016-11-07 Thread Lei Yang
Dear All, Does anyone know how to combine MCMC results from BiSSE analyses (used 100 trees to address phylogenetic uncertainty)? testsamples <- lapply(lik.lambda, mcmc, c(0.0380925074, 0.0274189791, 0.0128575318, 0.0009811349), nsteps=100, prior=prior.exp, w=0.1, print.every=10) >