Demo: Running CLUES on Simulated Data

Running mini_clues on simulated genomic data.

CLUES demo of selection inference. Panel A: Wright-Fisher allele frequency trajectories under different selection coefficients. Panel B: Transition matrix difference between selection and neutrality, showing how selection biases frequency changes. Panel C: Likelihood surface over selection coefficient values. Panel D: Beta-quantile frequency bin discretization with finer resolution at the boundaries.

This figure was generated by running the mini_clues implementation on data simulated with msprime. The script is at figures/fig_demo_clues.py.