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Starred repositories

14 stars written in Jupyter Notebook
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A collection of pre-trained, state-of-the-art models in the ONNX format

Jupyter Notebook 9,188 1,534 Updated Sep 16, 2025

Cell2Sentence: Teaching Large Language Models the Language of Biology

Jupyter Notebook 728 102 Updated Nov 4, 2025
Jupyter Notebook 559 106 Updated Apr 3, 2025
Jupyter Notebook 84 13 Updated Aug 18, 2025

HoVer-Net inference code for simultaneous nuclear segmentation and classification

Jupyter Notebook 69 19 Updated Nov 21, 2022
Jupyter Notebook 66 10 Updated Sep 23, 2024

[Medical Image Analysis] Adversarial Data Augmentation with Chained Differentiable Transformations (AdvChain)

Jupyter Notebook 58 7 Updated Jan 26, 2023

Scripts to benchmark and train foldseek

Jupyter Notebook 40 5 Updated May 22, 2024

[MICCAI 2021 Oral] Cooperative Training and Latent Space Data Augmentation for Robust Medical Image Segmentation

Jupyter Notebook 36 6 Updated Dec 6, 2021

Code for ST_IGI package

Jupyter Notebook 34 2 Updated Jul 10, 2025
Jupyter Notebook 27 4 Updated Nov 26, 2024

[MICCAI 2020 Oral] Realistic Adversarial Data Augmentation for MR Image Segmentation

Jupyter Notebook 16 1 Updated Jul 5, 2022

LeeQ is a python package for orchestrating pulse sequences for quantum computing experiment with easy to use syntax.

Jupyter Notebook 7 2 Updated Sep 22, 2025