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@berenslab

Berens Lab @ University of Tübingen

Department of Data Science at the Hertie Institute for AI in Brain Health, University of Tübingen

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  1. rna-seq-tsne rna-seq-tsne Public

    The art of using t-SNE for single-cell transcriptomics

    Jupyter Notebook 131 35

  2. pubmed-landscape pubmed-landscape Public

    The landscape of biomedical research

    Jupyter Notebook 122 13

  3. t-simcne t-simcne Public

    Unsupervised visualization of image datasets using contrastive learning

    Python 115 14

  4. neural_data_science neural_data_science Public

    Contains programming labs and lecture notes for the lecture "Neural Data Science"

    Jupyter Notebook 111 26

  5. uneye uneye Public

    Deep neural network for eye movement detection

    Jupyter Notebook 79 30

  6. contrastive-ne contrastive-ne Public

    Contrastive neighbor embeddings

    Jupyter Notebook 57 10

Repositories

Showing 10 of 92 repositories
  • medical-shortcut-mitigation Public

    This repository contains the code for the paper "Mitigating Shortcut Learning via Feature Disentanglement in Medical Imaging: A Benchmark Study".

    berenslab/medical-shortcut-mitigation’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Feb 16, 2026
  • pywarper Public

    Conformal mapping-based warping of retinal meshes and skeletons.

    berenslab/pywarper’s past year of commit activity
    Python 0 GPL-3.0 0 0 1 Updated Feb 16, 2026
  • retinal-rl Public

    Testing theories about retinal coding in reinforcement learning environments

    berenslab/retinal-rl’s past year of commit activity
    Python 0 AGPL-3.0 1 21 3 Updated Feb 11, 2026
  • text-embed-augm Public

    Companion repository to our González-Márquez et al. (2025) preprint "Cropping outperforms dropout as an augmentation strategy for training self-supervised text embeddings" (arXiv)

    berenslab/text-embed-augm’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Feb 10, 2026
  • disentangling-retinal-images Public

    This repository contains the code for the paper "Disentangling representations of retinal images with generative models".

    berenslab/disentangling-retinal-images’s past year of commit activity
    Python 3 MIT 1 0 0 Updated Feb 4, 2026
  • flatone Public

    A command-line tool to flatten one EyeWire II neuron automatically.

    berenslab/flatone’s past year of commit activity
    Python 0 GPL-3.0 1 0 0 Updated Feb 2, 2026
  • skeliner Public

    A lightweight neuromorphological mesh skeletonizer.

    berenslab/skeliner’s past year of commit activity
    Python 2 GPL-3.0 1 0 0 Updated Jan 28, 2026
  • fundus_image_toolbox Public

    A Python package for fundus image processing.

    berenslab/fundus_image_toolbox’s past year of commit activity
    Jupyter Notebook 22 MIT 4 1 1 Updated Jan 20, 2026
  • cell_mosaics Public

    Package to compute and plot cell mosaics and coverage.

    berenslab/cell_mosaics’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Jan 20, 2026
  • iclr-dataset Public

    ICLR dataset

    berenslab/iclr-dataset’s past year of commit activity
    Jupyter Notebook 51 MIT 11 1 2 Updated Jan 7, 2026
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