PhD Candidate @ Lorentz Institute, Leiden University
Physicist | Computational physics | Open-Source software | My interests are in complex systems, emergence, and computational tools to study and visualize.

My work spans statistical physics, cellular automata, tensor networks, and machine learning.

I work on large-scale simulations of biological cells in the research group of prof. Luca Giomi. Our goal is to understand biological matter through the lens of statistical physics using concepts like phase transitions, where order parameters and correlation functions are key tools. We study properties of cells like the geometry and topology, liquid-crystal order, and collective motion.

Current specializations:

• Computational biophysics and statistical physics
• Visualization & high-performance computing
• Scientific software design

A list of projects on my Github:

• Personal
  • catnip🐈🐈‍⬛
    Cellular automata Tensor Networks in NumPy (code written for my MSc thesis at the University of Amsterdam).
  • calvinbakker.github.io
    My personal website with CV.
• Work
  • CUDA / C++
    • statphys2D_cuda
      Compute statistical physics measures for two-dimensional data.
    • cpm_nano
      Cellular Potts Model simulations specialized for two-dimensional tissues.
  • Python
    • compute-okuboweiss-field
      Compute and visualize stream functions $\psi$ and the Okubo–Weiss field $Q$.
    • conversion-factor-for-shape-index
      Calculate the conversion factor for determining the shape-index from discrete perimeter measures.

I’m open for:

• Collaborating on open-source software
• Discussing high-performance computing, tensor networks, and complex systems

If you’re interested in working together, feel free to reach out!
📧 Email: bakker@lorentz.leidenuniv.nl
🌐 Website: calvinbakker.github.io
💼 LinkedIn: linkedin.com/in/calvinbakker