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    26 repositories

    • plankton-dinov2

      Public
      PyTorch code and models for the DINOv2 self-supervised learning method.
      Jupyter Notebook
      •
      Apache License 2.0
      •824•1•1•0•Updated Nov 12, 2024Nov 12, 2024

    • arctique

      Public
      Python
      •
      GNU General Public License v3.0
      •0•1•0•2•Updated Nov 11, 2024Nov 11, 2024

    • TW-autoencoder

      Public
      Python
      •0•0•0•0•Updated Jul 18, 2024Jul 18, 2024

    • evaluate-instance-segmentation

      Public
      Evaluation scripts for nuclei instance segmentation in 2d and 3d
      Python
      •2•5•0•0•Updated Jun 12, 2024Jun 12, 2024

    • fisbe

      Public
      SCSS
      •0•0•0•0•Updated Jun 4, 2024Jun 4, 2024

    • PEERCE

      Public
      PEERCE, PD-L1 Expression Estimation for Rare Cancer Entities
      Python
      •
      MIT License
      •0•1•0•0•Updated Jun 3, 2024Jun 3, 2024

    • ACTIS

      Public
      Python
      •
      Other
      •0•0•1•0•Updated Jan 8, 2024Jan 8, 2024

    • mae3d_flylight

      Public
      3d PyTorch implementation of MAE for the Flylight dataset
      Python
      •
      Other
      •1.2k•0•0•0•Updated Dec 18, 2023Dec 18, 2023

    • funlib.learn.torch

      Public
      Python
      •12•0•0•0•Updated Dec 18, 2023Dec 18, 2023

    • gunpowder

      Public
      A library to facilitate machine learning on multi-dimensional images.
      Python
      •
      MIT License
      •56•0•0•0•Updated Oct 31, 2023Oct 31, 2023

    • ffn

      Public
      Flood-Filling Networks for instance segmentation in 3d volumes.
      Python
      •
      Apache License 2.0
      •101•0•0•0•Updated Oct 29, 2023Oct 29, 2023

    • brainbow

      Public
      Python
      •0•0•1•0•Updated Oct 26, 2023Oct 26, 2023

    • PatchPerPix

      Public
      official implementation of the PatchPerPix instance segmentation method
      computer-visioninstance-segmentation
      Python
      •
      MIT License
      •5•27•2•0•Updated Jun 27, 2023Jun 27, 2023

    • PatchPerPix_experiments

      Public archive
      experiments script for the PatchPerPix instance segmentation method
      Python
      •3•8•0•0•Updated Jun 19, 2023Jun 19, 2023

    • tau_nerve_segmentation

      Public
      Jupyter Notebook
      •
      Apache License 2.0
      •0•0•0•0•Updated Mar 20, 2023Mar 20, 2023

    • funlib.run

      Public
      Python wrapper for submitting jobs via bsub with the option to do so in a container environment.
      Python
      •4•0•0•0•Updated Sep 14, 2022Sep 14, 2022

    • linajea

      Public
      Python
      •
      MIT License
      •7•0•0•0•Updated Sep 9, 2022Sep 9, 2022

    • lizard_challenge

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Apr 6, 2022Apr 6, 2022

    • funlib.learn.tensorflow

      Public
      Commonly used `tensorflow` models and losses.
      Python
      •6•0•0•0•Updated Jan 12, 2022Jan 12, 2022

    • shift_equivariance_unet

      Public
      How Shift Equivariance Impacts Metric Learning for Instance Segmentation
      Jupyter Notebook
      •
      MIT License
      •2•3•1•0•Updated Jan 7, 2022Jan 7, 2022

    • aux_cpv_loss

      Public
      An Auxiliary Task for Learning Nuclei Segmentation in 3D Microscopy Images
      Python
      •
      MIT License
      •1•3•0•0•Updated Jan 5, 2022Jan 5, 2022

    • evaluate-instance-detection

      Public
      Evaluation script for instance detection (needs dense ground truth segmentation)
      Python
      •1•0•0•0•Updated Jan 4, 2022Jan 4, 2022

    • exportChannelsFromCZI

      Public
      Export channels from carl Zeiss image (.czi) formatted files. Needs a comma separated value (.csv) file to define the name for each channel.
      Python
      •
      MIT License
      •1•0•0•0•Updated Nov 30, 2021Nov 30, 2021

    • PatchPerPixMatch

      Public
      script collection for matching neuronal morphologies
      Python
      •0•0•0•0•Updated Jul 27, 2021Jul 27, 2021

    • mutex-watershed

      Public
      The mutex watershed for image segmentation.
      Python
      •13•0•0•0•Updated Nov 16, 2020Nov 16, 2020

    • PANet

      Public
      PANet for Instance Segmentation and Object Detection
      Python
      •281•0•0•0•Updated Feb 28, 2019Feb 28, 2019