Hello PhyloPeople. I have a MrBayes issue here.
I`m trying to run a combined analysis (morphological + DNA) from my dataset, But I ran into some weird results and I do not know what to make of it…
I made four different datasets (with different number of taxa) trying to investigate effects of adding morphological data on the final topology. I have on the matrices in question, 4521 characters, 256 of those morphological. All datasets were analyze under the exact same parameters (Same data partitioning models and parameters) where the only variation was the taxa coverage:
- M1 has 307 taxa where 12 have only morphological data, 202 taxa have only molecular data and 93 have both
- M2 have 93 taxa where all of them have both morphological and molecular data
- M3 have 105 taxa where all of them have morphological data but only 93 have molecular data
- M4 have 294 taxa where all have molecular data, but only 93 have morphological data.
When I was checking my results of M3 (after 100 million generation) I got some very weird numbers on the ESS column on Tracer (See photo). At first I thought it was some parameterization problem… however I got the same issues on two of the four runs of M2 (the others seem ok.) M1 and M4 seem to be within the expected.
Did any of you guys had a similar issue before? What you think it my be the problem?
I appreciate any feedback you can give. Thanks!