how to FitMG94 reports trees scaled on dS, dN and dN/dS

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HyPhy standalone analyses

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how to FitMG94 reports trees scaled on dS, dN and dN/dS #41

Open sushidaren opened 1 year ago

sushidaren commented 1 year ago

Dear Dr. Pond, This is Xiaojuan Li，I have calculate dn and ds using FitMG94, which reported trees scaled on expected number of synonymous and non synonymous substitutions per codon. But I also need trees scaled on ds and dn, and dn/ds，thus could you please help me how to extract dS, dN and dN/dS. Thank you for your consideration. Sincerely Xiaojuan Li

spond commented 1 year ago

Dear @sushidaren,

Look inside the JSON file produced by FitMG94.bf.

Best, Sergei