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denisekuehnert / bdmm

Phylodynamics with Migration: A Computational Framework to Quantify Population Structure from Genomic Data
http://mbe.oxfordjournals.org/content/early/2016/05/20/molbev.msw064
GNU General Public License v3.0
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BEAUTi not correctly setting priors bounds #32

Closed esteinig closed 4 years ago

esteinig commented 4 years ago

Hey, no rush on this since I'm editing the XML, but I noticed that using the multi-type birth-death model two prior bounds are set incorrectly in BEAUTi using default settings with GTR4:

gamma0

XML on the GammaShapePrior should be [-inf, inf] but is [0, 0]

gamma1

XML on the rateMatrixPrior should be [0, 100] but is [-inf, inf]

gamma2

This is BEAUTi v2.6.2 and BDMM v1.0 and MultiTypeTree v7.0.1

esteinig commented 4 years ago

I looked at the wrong components - my apologies! These are set correctly in the parameters.