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@bozeklab Data Science of Bioimages

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    60 repositories

    • histo-miner

      Public
      Repository of the paper: "Histo-Miner: Tissue Features Extraction With Deep Learning from H&E Images of Squamous Cell Carcinoma Skin Cancer"
      Python
      •
      Other
      •2•19•0•0•Updated Feb 5, 2026Feb 5, 2026

    • DISK

      Public
      Deep Imputation for Skeleton data
      Python
      •
      MIT License
      •5•26•1•0•Updated Feb 5, 2026Feb 5, 2026

    • actitect

      Public
      Repository for ActiTect (general-purpose actigraphy analysis) and RBDisco (RBD prediction from wrist actigraphy).
      machine-learningneurosciencerbdsleepwearable-deviceswearablessleep-analysisactigraphyaxivityneurodegenerative-diseases
      Python
      •
      Other
      •0•4•0•0•Updated Feb 3, 2026Feb 3, 2026

    • lunaphore

      Public
      Scripts for the segmentation and analysis of images from the Sos lab
      Jupyter Notebook
      •0•0•0•0•Updated Dec 14, 2025Dec 14, 2025

    • TransientTrack

      Public
      0•0•1•0•Updated Dec 8, 2025Dec 8, 2025

    • amap-app

      Public
      AMAP-APP is a desktop application that leverages deep learning to performs segmentation and morphometry quantification of fluorescent microscopy images of podoc…
      Python
      •
      GNU General Public License v3.0
      •1•6•0•0•Updated Oct 27, 2025Oct 27, 2025

    • DISK_paper_code

      Public
      Additional scripts to reproduce analyses from the DISK paper.
      HTML
      •
      MIT License
      •0•0•0•0•Updated Sep 26, 2025Sep 26, 2025

    • dearrayer

      Public
      Python tool for semi-automatic extracting cores from tissue microarrays
      Python
      •
      Other
      •0•3•0•0•Updated Aug 8, 2025Aug 8, 2025

    • ecmstat

      Public
      Python
      •0•0•0•0•Updated Jul 7, 2025Jul 7, 2025

    • ComputerVision_SS24

      Public
      0•0•0•0•Updated Apr 29, 2025Apr 29, 2025

    • worm-behavior

      Public
      Repository for Unsupervised Representation Learning of C. elegans Poses and Behavior Sequences From Microscope Video Recordings.
      Python
      •
      MIT License
      •0•0•0•0•Updated Apr 28, 2025Apr 28, 2025

    • PIPNet

      Public
      PIP-Net: Patch-based Intuitive Prototypes Network for Interpretable Image Classification (CVPR 2023)
      Python
      •33•0•0•0•Updated Mar 4, 2025Mar 4, 2025

    • cscc-response

      Public
      Python
      •0•0•0•0•Updated Nov 5, 2024Nov 5, 2024

    • ProtoPool

      Public
      Code for "Interpretable image classification with differentiable prototypes assignment", ECCV 2022
      Python
      •
      MIT License
      •6•0•0•0•Updated Oct 4, 2024Oct 4, 2024

    • lmagp

      Public
      Repository of the paper "Language models are good pathologists: using attention-based sequence reduction and text-pretrained transformers for efficient WSI clas…
      Python
      •
      MIT License
      •1•8•0•0•Updated Sep 10, 2024Sep 10, 2024

    • mcm

      Public
      Apache License 2.0
      •0•0•0•0•Updated Aug 21, 2024Aug 21, 2024

    • gbm-seg

      Public
      Python
      •1•0•0•0•Updated Aug 12, 2024Aug 12, 2024

    • part_detection

      Public
      Code accompanying PDiscoNet: Semantically consistent part discovery for fine-grained recognition
      Python
      •
      MIT License
      •3•0•0•0•Updated Aug 11, 2024Aug 11, 2024

    • dino-vit-features

      Public
      Official implementation for the paper "Deep ViT Features as Dense Visual Descriptors".
      Python
      •
      MIT License
      •59•0•0•0•Updated Jul 1, 2024Jul 1, 2024

    • CellViT_v2

      Public
      CellViT: Vision Transformers for Precise Cell Segmentation and Classification
      Python
      •
      Other
      •63•0•0•0•Updated Jun 17, 2024Jun 17, 2024

    • CellViT

      Public
      CellViT: Vision Transformers for Precise Cell Segmentation and Classification
      Python
      •
      Other
      •63•0•0•0•Updated Jun 3, 2024Jun 3, 2024

    • GlomNet

      Public
      GlomNet: A HoVer Deep Learning Model for Glomerulus Instance Segmentation
      Python
      •1•1•1•0•Updated May 30, 2024May 30, 2024

    • CLTR

      Public
      [ECCV 2022] An End-to-End Transformer Model for Crowd Localization
      Python
      •
      MIT License
      •11•0•0•0•Updated May 29, 2024May 29, 2024

    • H-Deformable-DETR

      Public
      [CVPR2023] This is an official implementation of paper "DETRs with Hybrid Matching".
      Python
      •
      MIT License
      •32•0•0•0•Updated May 27, 2024May 27, 2024

    • ProtoMIL

      Public
      Jupyter Notebook
      •
      MIT License
      •142•0•0•0•Updated May 24, 2024May 24, 2024

    • dino_parts

      Public
      PyTorch code for Vision Transformers training with the Self-Supervised learning method DINO
      Python
      •
      Apache License 2.0
      •1k•0•0•0•Updated May 11, 2024May 11, 2024

    • wsi-preproc

      Public
      Preprocessing steps for Whole Slide Images, with Multiple Instance Learning problems in mind.
      Python
      •0•3•0•0•Updated Mar 15, 2024Mar 15, 2024

    • PromptNucSeg

      Public
      Code for paper "Unleashing the Power of Prompt-driven Nucleus Instance Segmentation"
      Python
      •7•0•0•1•Updated Mar 12, 2024Mar 12, 2024

    • Siamese-Image-Modeling

      Public
      Python
      •
      Other
      •6•0•0•0•Updated Mar 1, 2024Mar 1, 2024

    • adios

      Public
      Shell
      •6•0•0•0•Updated Feb 21, 2024Feb 21, 2024