GSoC'25 : A Solver Implementation for Dynamic Models in Java

[Ayush Baranwal]

Dear COMBINE Community,

The Systems Biology Simulation Core Library (SBSCL) is a Java-based backend that provides solvers for interpreting systems biology models in three different frameworks: constraint-based analysis, stochastic simulation, and ordinary differential equation (ODE) systems. As part of this year's Google Summer of Code, we are extending the latter by adding the LSODA algorithm to the available set of ODE solvers. This addition aims to strengthen the library’s performance and flexibility for Java programmers working in the field of computational biology .

My name is Ayush Baranwal. I am an undergraduate engineering student at Jawaharlal Nehru University, New Delhi, India. Because of my strong interest in mathematics and problem-solving, I find great joy working on this project. Alongside Java, I am also proficient in C/C++ and Python.

My mentors are Prof. Andreas Draeger (Martin Luther University Halle-Wittenberg, Germany), Prof. Akira Funahashi and Taichi Araki (Keio University, Japan), and Arthur Neumann (University of Tuebingen, Germany) – all in CC to this message.

If you’d like to reach out, know more, or share suggestions, here are some useful resources

• GitHub project: https://github.com/draeger-lab/SBSCL

• Weekly blog: https://gsoc25-baranwalayush.blogspot.com/

We would greatly appreciate any kind of feedback.

Sincerely yours,

Ayush Baranwal