Entering edit mode
8.7 years ago
Yosi
•
0
Hi there,
I'm new here and in the field of MCMCMC. I screened already all questions but couldn't find an answer to my problem.
So, I'm working with PhyloBayes and I'm wondering what the different columns in the *.trace outfile mean. Some points are clear, some more or less, but most of them depict a mystery for me. Maybe someone of you is more fit in this topic? Many thanks for your help!
- #cycle: that's clear ;)
- #treegen
- time
- loglik: that's also clear :) (log likelihood)
- length
- sigma: standard deviation of a Gaussian distribution?
- mu: mean of a Gaussian distribution?
- meanrates
- scale
- alpha
- nocc
- stat
- statalpha
- rrent
- meanrr
- kappa: ratio between transitions and transversions
- allocent