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
cellular_raza: Cellular Agent-Based Modeling from a Clean Slate
Rust Science Programming
I gave a talk at the Scientific Computing in Rust conference.
Ownership in Rust – Yet another explanation
Programming Rust
A naive and hopefully intuitive explanation of ownership rules in Rust.
Mein geheimes Focaccia Rezept
Personal
In der letzten Zeit wurde ich immer öfter nach meinem Focaccia-Rezept gefragt. Damit ich in der Zukunft nicht jedes Mal alles von vorne beschreiben muss kommt hier jetzt die vollständige Anleitung. Das Rezept ist gut für Anfänger geeignet und kann aber je nach Belieben echt ganz einfach angepasst werden.
iGEM 2023 – Grand Jamboree
Science Biology
Over the past months I was supervising and helping the current iGEM Team from Freiburg in their Journey towards the Grand Jamboree. This weekend, we finally had the opportunity to present our work – CELLECT.
Latest Publications
cellular_raza
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.
Experimental Design for Predictive Models in Microbiology Depending on Environmental Variables
Paper Science Python
doi.org/10.1007/978-1-0716-4112-5_4
In this bookchapter we introduce the concepts of model-based experimental design and provide step-by-step instructions for finding the optimal design using the well-known Baranyi-Roberts growth model as an example.
Latest Software
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.
Spatial Decomposition
Rust
github.com/jonaspleyer/spatial-decomposition
A crate which can decompose given rectangles into subdomains depending on different criteria. It notably implements the Kong-Mount-Roscoe (KMR) decomposition.