Students

Below is a list of PhD, MSc and BSc students that I supervised.

PhD Students

current

Niels Holtgrefe

websitescholar

2025

2025

Esther Julien

Leveraging Data in Algorithm Design

scholar

2021

2021

Remie Janssen

Rearranging Phylogenetic Networks

websitescholar

2021

Yukihiro Murakami

On Phylogenetic Encodings and Orchard Networks

websitescholar

2019

2019

Teun Janssen

Optimization in the Photolithography Bay: Scheduling and the Traveling Salesman Problem

website

MSc Students

2026

2026

Natalia Vázquez Purriños

Phylogenetic Network Inference via Reinforcement Learning and Cherry Picking

2025

2025

Tim Levert

Triplet Encoding of Stemmata

2025

Sebastiaan van Krieken

Dense Reachable Subgraphs: Hardness, Algorithms and Experiments

2025

Floor Laseur

Initialization Strategies for Energy Management System Optimization

2025

Noud Riemens

Exploiting Asset Similarities in Sample Efficient Portfolio Optimization

2024

2024

Theo Broeders

A Graph-Neural-Network Approach for Reconstructing Temporal Networks

2024

Timo den Dulk

Heuristics for strategic passenger-oriented train timetabling

2023

2023

Robbert Huijsman

Treewidth based algorithms for Tree Containment in phylogenetics

2023

Hans Keur

Creating phylogenetic networks from clusters

2023

Niels Holtgrefe

Computing the Scanwidth of Directed Acyclic Graphs

2023

Christopher Reichling

Classes of Semi-binary Phylogenetic Networks encoded by μ-representations

2022

2022

Teun Druijf

Optimizing Shunting Operations: A case-study at Kijfhoek shunting yard

2022

Leonie Nipius

Encoding undirected and semi-directed binary phylogenetic networks by quarnets

2022

Frank van der Made

Box set optimization for e-commerce warehouses: Applied to bol.com

2022

Susan Veldkamp

A MaxSAT Approach to Solving Frequency Conflicts within Cyclic Train Timetables

2021

2021

Simon van Oosterom

Investment Optimized Airport Infrastructure for Battery and Hydrogen Canister Swaps

2021

Frank Janisse

Encoding level-k phylogenetic networks

2021

Alexandre Simon

Algorithmic study of 2-interval graphs

2021

Myrte van Belkom

Exploring deep learning to improve allelic peak calling in forensic DNA analysis

2020

2020

Sander Borst

New FPT algorithms for finding the temporal hybridization number for sets of phylogenetic trees

2020

Sjors Kole

Constructing level-2 phylogenetic networks from trinets

2020

Bryan Versendaal

Improving algorithms in phylogenetics using machine learning

2020

Jasper van Bemmelen

Reconstructing tree-child networks from their exhibited trinets

2020

Rosanne Wallin

Applicability of phylogenetic network algorithms for representing the evolutionary history of SARS-CoV-2

2019

2019

Mick van Dijk

Classifying Candida species using Mixed Integer Optimization based optimal classification trees

2018

2018

Erica van der Sar

Multi-attribute vehicle routing problems: Exploring the limits of exact methods in practice

2018

Céline Swennenhuis

Parallel Machine Scheduling: with Partition Constraints

BSc Students

2026

2026

Jari Brits

Distinguishing phylogenetic trees from networks

2026

Youri van der Kuij

Maximizing Quartet Profile Consistency for Level-1 Phylogenetic Networks

2025

2025

Simon Deuten

Reconstructing Phylogenetic Networks Using Quarnet-Puzzling

2025

Guuske Kouwenhoven

Identifiability of Phylogenetic Trinets

2024

2024

Bouke Hoekstra

Reconstructing Phylogenetic Networks Using Cherry Picking

2024

Tyren Koning

At a crossroads – Optimizing Markovian patrol strategies for perimeter defense

2024

Joachim de Bosch Kemper

Establishing Existence of Paths between Ranked Phylogenetic Networks

2023

2023

Merel van Gruijthuijsen

Forest-Based Binary Phylogenetic Networks: Finding Optimal Base Forests with Integer Linear Programming

2022

2022

Merel Susanna

Making phylogenetic networks orchard: Algorithms to determine if a phylogenetic network is orchard and to transform non-orchard to orchard networks

2022

Margot van de Klok

A new polynomial for describing Phylogenetic Networks

2021

2021

Elise Deen

Different reduction rules for the Maximum Parsimony distance on phylogenetic trees

2020

2020

Leonie Nipius

Rooted binary level-3 phylogenetic networks are encoded by quarnets

2020

Selma Husanović

Tail move rearrangement algorithm for rooted binary phylogenetic networks

2020

Riche Mol

Reconstruction of Phylogenetic Networks: An algorithm for deconstructing and reconstructing Level-2 Binary Networks based on their distances

2019

2019

Esmay Verzijlbergen

Orienting phylogenetic networks

2019

Robbert Huijsman

Tree-child Network Containment

2019

Maaike Elgersma

Preventing overfitting in Mixed Integer Optimization based classification tree construction

2018

2018

Frank Janisse

Measuring how far a nonbinary phylogenetic network is from being tree-based

2018

Arthur Mooiman

Computing Measures for Tree-Basedness of Phylogenetic Networks

2018

Bram van den Heuvel

Multi-robot parcel sorting systems: Allocation and path finding

2017

2017

Niels Jonkman

Parental Parsimony on Phylogenetic Networks: Computing the Maximum Parsimony Scores of Phylogenetic Networks

2017

Noortje Bonenkamp

Resource-constrained Machine Scheduling

2016

2016

Eveline de Swart

Resolving contradicting binets and finding similarities in networks

2016

Margot van Aken

De afstand tussen ongewortelde fylogenetische bomen

2015

2015

Laura Jetten

Characterising tree-based phylogenetic networks

2015

Erica van der Sar

Constructing Evolutionary Supernetworks from Binets