Jonas Pleyer

Biology, Physics, Code and Life

I’m a doctoral candidate at the University of Freiburg in Physics, working on computational models to study cellular behaviour, pattern formation and self-organization in complex biological cellular systems. My background is in theoretical physics. To me, Programming and Mathematics are more than just a set of tools.

Latest Posts

Writing Scientific Papers with ChatGPT


Science Paper

I am very sceptical about the usgae of LLMs. In this post, I explore some of my own experiences with using ChatGPT to assist me in writing academic texts.

EuroRust 2025


Conference Rust Programming

Over the past two days I attended the EuroRust 2025 conference. The talks very very interesting, covering a wide range of topics. In particular, I very much enjoyed 3 talks which I want to talk about briefly.

Downloading Files with Progress Bars in Rust


Rust
https://github.com/jonaspleyer/2025-09-02-download-file-progress-bar-rust

I could not find any short snippets on how to download files in Rust using a progress bar. So here is my take on it.

cellular_raza - Happy Birthday

Today, my PhD project cellular_raza turns 3 years old. It is and has been a very enlightening journey. Let me elaborate ..

Latest Publications

cellular_raza – Novel Flexibility in Design of Agent-Based Models in Cellular Systems


Paper Science Rust
doi.org/10.25521/maconf.2025.1027

This paper uses cellular_raza to develop a model with cell-type specific interactions whereby cells self-assemble into regions of similar species which is also known as cell-sorting. We use this model to asses the parallelization performance of the numerical backend

cellular_raza - Cellular Agent-based Modeling from a Clean Slate


Paper Science Rust
10.21105/joss.07723

How does individual behavior of cells lead to collective emergent phenomena: In our paper "cellular_raza: Cellular Agent-based Modeling from a Clean Slate", we publish a new agent-based simulation framework to model and study a variety of such cellular systems.

Latest Software

indexing_fmt


Rust
github.com/jonaspleyer/indexing_fmt

This crate allows the formatting of integer types as superscripts or subscripts. It is written in pure safe Rust and no_std compatible.

approx-derive & approxim


Rust
github.com/jonaspleyer/approx-derive

Provides derive macros for the popular approx crate. Approxim is a fork of approx which includes additional functionality.