0 branch lengths in Gray et al 2009 MCCT-tree

[hedvigs]

0 branch lengths in Gray et al 2009 MCCT-tree

[king-ben]

Could you try recalculating the MCCT tree? I'm confused why there are 0 length branches if there are none in the posterior samples.

[SimonGreenhill]

The 0 branches are an artefact of the dating method used (r8s) which rounded small branches below a threshold to zero. I only found this a few years ago. I think that I made the MCC tree from the undated posterior distribution (where branches were proportional to change) and then ran r8s on it. The dated posterior should not have the same issue. So, I'd go with option 3.

[HedvigS]

Thanks @SimonGreenhill . (3) and then the (a) option?

[SimonGreenhill]

(d) do it on all trees to account for phylogenetic uncertainty.

[HedvigS]

Makes sense.

Adding "get access to computer cluster to to do-list."