Biomedical Informatics at ETH Zurich

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RGAN RGAN Public archive

Recurrent (conditional) generative adversarial networks for generating real-valued time series data.

Python 654 180
metagraph metagraph Public

Scalable annotated de Bruijn graphs for DNA indexing, alignment, and assembly

C++ 229 26
SOM-VAE SOM-VAE Public

TensorFlow implementation of the SOM-VAE model as described in https://arxiv.org/abs/1806.02199

Python 198 32
GP-VAE GP-VAE Public

TensorFlow implementation for the GP-VAE model described in https://arxiv.org/abs/1907.04155

Python 144 30
spladder spladder Public

Tool for the detection and quantification of alternative splicing events from RNA-Seq data.

Python 114 35
DeepSpot DeepSpot Public

DeepSpot: Deep learning model for predicting spatial transcriptomics from H&E histopathology images. Supports spot-level (Visium) and single-cell (Xenium) resolution.

Jupyter Notebook 95 20

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immunopepper_analysis Public
Analyses for ImmunoPepper paper

ratschlab/immunopepper_analysis's past year of commit activity

Jupyter Notebook 0 0 0 0 Updated Aug 21, 2026
aestetik Public
AESTETIK: Convolutional autoencoder for learning spot representations from spatial transcriptomics and morphology data

ratschlab/aestetik's past year of commit activity

Jupyter Notebook 26 MIT 3 0 0 Updated Aug 18, 2026
DeepSpot Public
DeepSpot: Deep learning model for predicting spatial transcriptomics from H&E histopathology images. Supports spot-level (Visium) and single-cell (Xenium) resolution.

ratschlab/DeepSpot's past year of commit activity

Jupyter Notebook 95 MIT 20 0 0 Updated Aug 17, 2026
DeepSpot2Cell Public
DeepSpot2Cell: Predicting virtual single-cell spatial transcriptomics from H&E images using spot-level supervision

ratschlab/DeepSpot2Cell's past year of commit activity

Python 18 MIT 4 0 0 Updated Aug 17, 2026
DeepSpotM Public
Multimodal foundation model predicting transcriptome-wide virtual spatial transcriptomics from histology.

ratschlab/DeepSpotM's past year of commit activity

Python 42 5 1 0 Updated Aug 12, 2026
mla Public
Scripts and data for reproducing the results of MetaGraph-MLA

ratschlab/mla's past year of commit activity

Jupyter Notebook 2 GPL-3.0 0 0 0 Updated Jul 27, 2026
WiNN-for-technical-correction Public
Repository accompanying the WiNN paper, containing reproducible analysis notebooks for the simulation benchmark and public multi-batch dataset, together with code to reproduce benchmarking results, supplementary analyses, and figure/table generation for the manuscript.

ratschlab/WiNN-for-technical-correction's past year of commit activity

R 0 MIT 0 0 0 Updated Jul 26, 2026
collinearity Public

ratschlab/collinearity's past year of commit activity

C++ 0 0 0 0 Updated Jul 26, 2026
winn Public
R package for metabolomics data correction using a multi-step pipeline

ratschlab/winn's past year of commit activity

HTML 0 1 0 0 Updated Jul 25, 2026
metagraph Public
Scalable annotated de Bruijn graphs for DNA indexing, alignment, and assembly

ratschlab/metagraph's past year of commit activity

C++ 229 GPL-3.0 26 4 17 Updated Jul 22, 2026