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Hi Liam,
my first pull request. I changed in the function
fastBMonly the call ofsimOUto use a vectorized version ofnsimas forsimBM.In
simBMI reorder the tree in "cladewise" order. Than the tree traversal is simply going through the edge matrix. Results are identical fornsim=1, but differ fornsim>1.The same simplification is done inside
simOU.For large trees with 1000 taxa 3-4 times faster and much faster for huge trees (10000 taxa) can much faster (100x). But also the code is much cleaner.
Cheers,
Klaus