Python package for applying machine learning to infer ancient introgression on a species tree. Given an input species tree, simcat automates the simulation of a SNP data training database and simplifies the process of training a neural network on that data and applying it to empirical SNP data.
To install:
- Clone this repo:
git clone https://github.com/pmckenz1/simcat.git - Move into the directory:
cd simcat - Install with pip:
pip install .
See simcat_demo.ipynb in the "notebooks" folder for a walkthrough.
In development. Please email pmckenzie@fas.harvard.edu with any questions / feature requests.
(from McKenzie & Eaton in prep)