What's Changed
* Add filtering by reversions to naive sequence, generalize ranking strategy by willdumm in https://github.com/matsengrp/gctree/pull/130
* adds new `--ranking_strategy` argument, which takes a string consisting of a comma-separated list or linear combination of ranking criterion identifiers.
* deprecates inference arguments `--branching_process_ranking_coeff`, `--ranking_coeffs`, and `--use_old_mut_parsimony` in favor of the new `--ranking_strategy` argument. These old options will still work but will throw warnings.
* adds counts of reversions to the naive sequence as a new ranking criterion
* adds `--show_nucleotide_mutations` argument, to specify that rendered tree should have nt mut annotations.
* modifies all ranking criteria so that smaller values are better. Log likelihoods are negated, and referred to as log loss.
**Full Changelog**: https://github.com/matsengrp/gctree/compare/v4.2.2...v4.3.0