[R-sig-phylo] Phylogenetic meta-analysis and setting animal variable in MCMCglmm

2009-09-18 Thread Dawson Wayne
Dear R-Sig-Me and R-Sig-Phylo users, I have recently started using MCMCglmm with the aim of conducting phylogenetic meta-analysis. I have managed to run a basic model using MCMCglmm(), with weak uninformative priors specified, but I am struggling to work out how to incorporate a phylogeny.

Re: [R-sig-phylo] Phylogenetic meta-analysis and setting animal variable in MCMCglmm- Jarrod Hadfield's response

2009-09-18 Thread Dawson Wayne
Hi all, Jarrod made a speedy response to my phylogenetic meta-analysis query in MCMCglmm on the R sig-me list. Here was his response below. I'll try both of his recommendations, and will post on how I get on. Cheers, Wayne -- Dr. Wayne Dawson Institute of Plant Sciences University of Bern

Re: [R-sig-phylo] [R-sig-ME] Phylogenetic meta-analysis and setting animal variable in MCMCglmm

2009-09-18 Thread Jarrod Hadfield
Dear Wayne, This is my fault. With phylogenies the ancestral nodes are treated as missing data and so I set their measurement error to an arbitrary value. The code for working out how many new measurement errors there are was incorrect. L98 of MCMCglmm.R should read mev-c(mev, rep(1,