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[WIP] Fast cherries #21

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[WIP] Fast cherries #21

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@sprillo sprillo commented Jan 14, 2025

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uWnosliW and others added 20 commits December 12, 2024 23:50
…ates. Function for estimating site rates was optimized with binary search. Tests for other functions in next commit
…ylogeny estimators. tested by running python reproduce_fig_1e_simplified_demo.py
… noticable differences with the original figures, need to add more unittests to figure out why
…herryml figure 1e (with color differences) using the new plotting code
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