MCMCTree tutorials - Ziheng Yang

In this tutorial we will analyze a data set of mitochondrial protein-coding genes for 7 ape species. This is the same data set analyzed by Yang and Rannala[11], and is included in the PAML[10] re- ... change to the JC69 model instead (model = 0 and alpha = 0). cleandata = 0 means that alignment gaps and ambiguity characters will be treated as ...

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