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1. clinical-nlp clinical-nlp Public

   Clinical NLP prototype for multilingual de-identification and medical entity extraction on Swiss clinical text. Combines transformer-based OpenMed models with regex-based rules for structured ident…

   Python 1

2. RhoAModelling RhoAModelling Public

   This repository contains the code to fit a biological model (ODE system) to the experimental data of RhoA activity obtained by Heydasch et al. (2023) for their research.

   Jupyter Notebook 1

3. DataDrivenEquationDiscovery DataDrivenEquationDiscovery Public

   The goal of this project is to gain data-driven insights into signaling mechanisms using recent machine learning tools such as UDEs (ODE with neural network approximator) and SINDy-based equation d…

   Jupyter Notebook

4. SBINN SBINN Public

   This repository contains the code to implement a Systems Biology Neural Network. In particular, various extensions designed to improve convergence and enhance model performance during training were…

   Jupyter Notebook

5. reimann-lab/mesospim-fractal-tasks reimann-lab/mesospim-fractal-tasks Public

   Collection of Fractal tasks to convert and process mesoSPIM lightsheet image data.

   Python 1

6. reimann-lab/skinnervation3d-app reimann-lab/skinnervation3d-app Public

   User interface to run Fractal task-based image analysis workflows.

   HTML