Niels Holtgrefe

PhyloZoo provides a Python framework for phylogenetic network analysis, supporting multiple representations and offering tools for visualization and I/O.

PaNDA introduces a polynomial-time algorithm for maximizing phylogenetic diversity in bounded scanwidth networks and extends the concept to semi-directed networks.

This paper develops an algebraic method to infer 4-leaf semi-directed phylogenetic networks from nucleotide sequences, showing high accuracy on simulated data and application to real Xiphophorus species data.

This paper shows that certain complex phylogenetic networks are identifiable from DNA sequences under the Jukes-Cantor model, with implications for distinguishing reticulated components.

This paper introduces an algorithm to reconstruct semi-directed phylogenetic level-1 networks from four-leaved networks or sequence alignments, demonstrating its performance on simulated and real data.