libpll
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xflouris
Phylogenetic Likelihood Library
Document the following in the wiki: - Invariant sites (theory behind + usage) - Ascertainment bias (theory behind + usage) - Derivatives computation (theory behind + usage) - `attributes` partition...
I just want to let you know that I appear to have gotten epa-ng compiled successfully on a POSIX system by using bison-3.3.2. I initially had 3.3 and got a...
In the [partition attributes](https://github.com/xflouris/libpll/wiki/Partition-Attributes) page, the documentation claims that multiple architecture flags can be set without trouble, but when this is done in practice, a segfault occurs.
Hi, The WAG rate matrix in libpll is different from the WAG matrix that you can download here: https://www.ebi.ac.uk/goldman-srv/WAG/wag.dat This is causing raxml-ng to fail some likelihood tests. There are...
The Makefile doesn't work on Mac OS X because -soname is not a valid compiler option. I think, it should be substituted with -install_name on OS X (if that's possible).
I'd like to keep a list of important libpll peculiarities which the users should be aware of. If you feel that certain points should be given special emphasis in the...
Hello, Comparing the method for creating fast stepwise addition trees from the old PLL library, I have noticed that the old method ran an algorithm for rearrangement at the end...
Perhaps now it would be a good idea to decide the data types of the following `pll_partition_t` variables: | **type** | **Variable** | **Role** | Suggested type | | ---...
Compile `libpll` with `gcc --coverage` and use `gcov` to detect which parts of `libpll` are not tested by the testing framework. I intend to do this end of december.
Memory requirements will increase, but we won't need to do any re-computation when iterating a tip through all possible placements (edges).