demestats is a Python package for computing population genetic statistics from demographic models and tree sequences. It serves as a unified framework for:
- momi3: A complete rewrite of the momi/momi2 packages for expected Sample Frequency Spectrum (SFS) calculation and demographic inference.
- CCR: Cross-Coalescence Rates for analyzing population divergence and gene flow.
- IICR: Inverse Instantaneous Coalescence Rate curves.
Full documentation is available at demestats.readthedocs.org.
demestats will eventually be available on PyPI. Until then, please install directly from GitHub:
pip install git+https://github.com/jthlab/demestatsWe recommend using a virtual environment (e.g., venv or conda) to avoid conflicts with system packages.
momi3 computes the expected SFS for flexible demographic models (using demes) and provides tools for likelihood-based inference. It introduces random projection methods for faster evaluation of complex models.
These modules provide statistics for analyzing coalescence rates across time, useful for inferring changes in population size and migration history.
MIT License. See docs/index.md or LICENSE for details.