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    32 repositories

    • nichepca

      Public
      Python
      •
      MIT License
      •2•6•0•2•Updated Oct 26, 2026Oct 26, 2026

    • Seumetry

      Public
      R Toolkit for Flow- and Mass Cytometry
      HTML
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      Other
      •1•3•0•0•Updated Oct 23, 2026Oct 23, 2026

    • magna-log-2026

      Public
      Python
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      MIT License
      •1•0•0•0•Updated Oct 9, 2026Oct 9, 2026

    • vfm_workshop

      Public
      Jupyter Notebook
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      GNU General Public License v3.0
      •0•0•0•0•Updated Sep 25, 2026Sep 25, 2026

    • bcai

      Public
      HTML
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      Other
      •8•36•2•0•Updated Sep 3, 2026Sep 3, 2026

    • expose

      Public
      Code for the paper "EXPOSE: Explainable and Domain-Robust Embeddings from Pathology Vision Foundation Models using Sparse Autoencoders"
      Python
      •
      MIT License
      •0•2•0•0•Updated Aug 28, 2026Aug 28, 2026

    • ml4spatialbio-2026

      Public
      HTML
      •0•0•0•1•Updated Aug 26, 2026Aug 26, 2026

    • copier-template

      Public
      A template to help users comply with our storage policy
      Shell
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      MIT License
      •0•0•0•0•Updated Aug 17, 2026Aug 17, 2026

    • biochem

      Public
      Python
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      Other
      •0•0•0•0•Updated Aug 7, 2026Aug 7, 2026

    • tsa_processing

      Public
      Jupyter Notebook
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      Other
      •0•1•0•0•Updated Aug 4, 2026Aug 4, 2026

    • DISSECT

      Public
      Deep semi-supervised complete cell deconvolution https://imsb-uke.github.io/DISSECT/
      Jupyter Notebook
      •
      MIT License
      •3•7•2•1•Updated Jul 21, 2026Jul 21, 2026

    • spatial-tcr

      Public
      Code to analyze the data for the manuscript: Spatial Analysis of T Cell Clonality in Autoimmune Kidney Disease Using TRV Probes
      Jupyter Notebook
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      MIT License
      •0•0•0•0•Updated Apr 16, 2026Apr 16, 2026

    • xenium-cgn

      Public
      Subcellular resolution immune landscape of glomerular tranjectories in auto immune kidney diseases
      Jupyter Notebook
      •5•7•1•0•Updated Apr 13, 2026Apr 13, 2026

    • Phenylketonuria

      Public
      Jupyter Notebook
      •0•1•0•0•Updated Jan 16, 2026Jan 16, 2026

    • ANCA-GN_transcriptomics

      Public
      Contains code to analyse the data from the paper: Immune profiling-based targeting of pathogenic T cells with ustekinumab in ANCA-associated glomerulonephritis
      Jupyter Notebook
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      MIT License
      •2•5•0•0•Updated Jan 13, 2026Jan 13, 2026

    • epigenetic-neural-glioblastoma

      Public
      Jupyter Notebook
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      MIT License
      •0•6•0•0•Updated Dec 18, 2025Dec 18, 2025

    • scale

      Public
      Jupyter Notebook
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      MIT License
      •1•1•1•0•Updated Dec 3, 2025Dec 3, 2025

    • scale-analysis

      Public
      Jupyter Notebook
      •0•0•0•0•Updated May 26, 2025May 26, 2025

    • rna_augment

      Public
      Jupyter Notebook
      •
      MIT License
      •1•1•0•1•Updated Apr 10, 2025Apr 10, 2025

    • MAXOMOD_Pipeline

      Public
      Reproducible analysis pipeline for the MAXOMOD project: Multiomic ALS signatures highlight sex differences and molecular subclusters and identify the MAPK pathw…
      R
      •
      MIT License
      •5•8•0•0•Updated Sep 26, 2024Sep 26, 2024

    • pcai

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•3•0•0•Updated Jul 1, 2024Jul 1, 2024

    • scGAN

      Public
      Realistic in silico generation and augmentation of single cell RNA-seq data using Generative Adversarial Neural Networks
      Python
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      MIT License
      •27•88•0•0•Updated May 27, 2024May 27, 2024

    • discern

      Public
      Deep Single Cell Expression ReconstructioN for improved cell clustering and cell subtype and state detection
      Jupyter Notebook
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      MIT License
      •3•6•0•0•Updated Feb 7, 2024Feb 7, 2024

    • deconvolution

      Public
      Runs deconvolution methods included in the DISSECT manuscript
      Jupyter Notebook
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      MIT License
      •0•0•1•0•Updated Feb 5, 2024Feb 5, 2024

    • TCRs-pMHC

      Public
      Datasets containing CDR3 Beta sequences and peptide sequences, with a true label indication whether the combination binds or not.
      1•2•0•0•Updated Sep 11, 2023Sep 11, 2023

    • exsrrf_analyses

      Public
      Jupyter Notebook
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      GNU General Public License v3.0
      •0•1•0•0•Updated Apr 4, 2023Apr 4, 2023

    • DeePSC

      Public
      Python
      •0•1•0•0•Updated Oct 20, 2022Oct 20, 2022

    • dcsurv

      Public
      Discrete Calibrated Survival
      Jupyter Notebook
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      MIT License
      •1•8•0•0•Updated Jun 23, 2022Jun 23, 2022

    • ecarenet

      Public
      Python
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      MIT License
      •1•3•0•0•Updated Nov 24, 2021Nov 24, 2021

    • bias-transfer-microscopy

      Public
      A repository containing the code for the paper "Deep learning-based bias transfer for medical immunofluorescent microscopy images"
      Python
      •
      MIT License
      •0•0•0•0•Updated Aug 3, 2021Aug 3, 2021
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