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 and install with pip.
See simcat_tutorial.ipynb in the "notebooks" folder for a walkthrough.
In development. Please email p.mckenzie@columbia.edu with any questions / feature requests.
(from McKenzie & Eaton in prep)