Jakub Voznica

This paper shows that graph neural networks with a new pooling method can accurately estimate diversification parameters in complex models where likelihoods are intractable.

The paper introduces a deep learning method for phylodynamic analysis that outperforms existing approaches on simulated data and applies to HIV outbreak dynamics.

The paper analyzes CRF19 HIV-1 subtype sequences from Cuba to trace its origin, spread, and transmission patterns, finding early introduction and rapid progression to AIDS.

The paper introduces COVID-Align, a tool for efficiently aligning SARS-CoV-2 genomes using profile HMM, enabling rapid and accurate analysis of large datasets.