Beast tempest slope is always 1

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Malithi De Silva

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May 15, 2025, 11:49:05 PM5/15/25

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Hi there,

I'm currently using GTR, G+I 4, country partition strict clock, coalescent constant size, with default priors.

tracer shows a deault clock rate. of 3x10-4.
but when i put the trees file to tempest, my slope is 1.
why is beast correcting my rates?

Thanks!

Artem B

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May 23, 2025, 5:06:38 AM5/23/25

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Hi Malithi,

You force R2 to 1 by dating tips in BEAST, which, as far as I understand, fits distances on a tree to your dates.
To properly check R2 in Tempest, you must use an ML tree inferred with any phylogenetics software you like (MEGA, IQ-TREE, etc.), not BEAST trees

Artem