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Fitting branch models with godon

Branch-models are currently not implemented in godon. In the PAML manual Ziheng Yang writes: This model is very parameter-rich and its use is discouraged. This was one of the reasons I did not ...
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1 vote

panic: division of zero by zero or infinity by infinity error when running GODON positive selection analysis

Ah wait you mentioned a branch sites test, right that makes sense. You've got two or more identical sequences in the analysis. Ensure there are no identical sequences in your alignments and ... PRESTO!...
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What are the p01sum and p0prop parameters in godon?

Disclaimer: I'm the author of godon. The question above comes from the real communication with a software user. In the godon implementation of the branch-site model I performed the following ...
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