Milan Malinsky comments

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                                            Milan Malinsky

can´t recognize a sample in a tree and recognize more four groups when I assigned three

Hi [almamelisa](https://github.com/almamelisa) As for the first issue, the names in the tree and the SETS.txt files which you linked are not the same. The tree should be for example like...

Question about order of population set when running Dtrios

Yes, if the tree file specifies (P1, P2), P3), O) then that's what the _tree.txt output is going to contain. However, do double check that this is the "correct" tree...

no p-values calculated for any trios after recent update

Hi Juan Manuel The updates in May were mainly do do with making the code simpler. There were only two changes in functionality: 1) adding the --KS-test-for-homoplasy option 2) bounding...