Repositories list

• MultiOmicsCellSim

  Public
  Cell Simulator to map parametrical distributions into various modalities

  Jupyter Notebook

  •

  GNU General Public License v3.0

  •0•1•0•0•Updated Nov 21, 2024Nov 21, 2024

• featureforest

  Public
  A napari plugin for segmentation using features from vision transformers

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•11•1•0•Updated Nov 15, 2024Nov 15, 2024

• labkit-ui

  Public
  Advanced Tool for Labeling And Segmentation

  Java

  •

  BSD 2-Clause "Simplified" License

  •21•33•58•3•Updated Oct 21, 2024Oct 21, 2024

• uSplit

  Public
  Python

  •

  MIT License

  •3•7•3•0•Updated Oct 17, 2024Oct 17, 2024

• MicroSSIM

  Public
  Range Invariant SSIM

  Jupyter Notebook

  •

  BSD 3-Clause "New" or "Revised" License

  •0•1•1•0•Updated Sep 21, 2024Sep 21, 2024

• cellpose-bmz-wrapper

  Public
  A wrapper to pack cellpose model for bioimage model zoo

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Sep 13, 2024Sep 13, 2024

• labkit-pixel-classification

  Public
  Java

  •

  BSD 2-Clause "Simplified" License

  •6•6•2•0•Updated Aug 29, 2024Aug 29, 2024

• bioimageio-uploader

  Public
  Svelte

  •2•0•0•0•Updated Aug 28, 2024Aug 28, 2024

• AI4LifeSubmissions

  Public
  Jupyter Notebook

  •

  MIT License

  •0•1•0•0•Updated Jul 30, 2024Jul 30, 2024

• denoiSplit

  Public
  Jupyter Notebook

  •

  BSD 3-Clause "New" or "Revised" License

  •1•2•0•0•Updated Jul 12, 2024Jul 12, 2024

• git_playground

  Public
  0•0•0•0•Updated Jun 19, 2024Jun 19, 2024

• napari-n2v

  Public
  A self-supervised denoising algorithm.

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •3•24•13•0•Updated Apr 6, 2024Apr 6, 2024

• n2v

  Public
  This is the implementation of Noise2Void training.

  Python

  •

  Other

  •112•409•21•3•Updated Apr 6, 2024Apr 6, 2024

• cryoCARE_pip

  Public
  PIP package of cryoCARE

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •16•27•14•1•Updated Apr 2, 2024Apr 2, 2024

• core-bioimage-io-python

  Public
  Python libraries for loading, running and packaging bioimage.io models

  Jupyter Notebook

  •

  MIT License

  •21•0•0•0•Updated Mar 24, 2024Mar 24, 2024

• EmbedSeg

  Public
  Code Implementation for EmbedSeg, an Instance Segmentation Method for Microscopy Images

  instance-segmentationtest-time-augmentationspatial-embeddings+ 1deep-learning

  Python

  •

  Other

  •23•112•10•0•Updated Feb 14, 2024Feb 14, 2024

• core-bioimage-io-widgets

  Public
  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•2•Updated Dec 11, 2023Dec 11, 2023

• HDN

  Public
  This repository hosts the code for HDN (associated with the paper https://arxiv.org/pdf/2104.01374.pdf) for pixel and structured noise removal for microscopy and natural image datasets

  Python

  •

  Other

  •7•35•4•1•Updated Nov 22, 2023Nov 22, 2023

• solvathon_sorting

  Public
  Sorting project(10)

  Jupyter Notebook

  •0•0•0•0•Updated Oct 12, 2023Oct 12, 2023

• MAESTER

  Public
  Masked Autoencoder Guided Segmentation at Pixel Resolution

  Python

  •

  MIT License

  •6•0•0•0•Updated Oct 3, 2023Oct 3, 2023

• labkit-command-line

  Public
  Labkit Command Line - Segment huge images on a cluster

  Java

  •

  BSD 2-Clause "Simplified" License

  •3•3•5•1•Updated Sep 25, 2023Sep 25, 2023

• DenoiSeg

  Public
  Joint training of denoising and segmentation.

  Jupyter Notebook

  •

  Other

  •21•68•6•0•Updated Aug 29, 2023Aug 29, 2023

• pn2v

  Public
  This is our implementation of Probabilistic Noise2Void

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •10•72•1•0•Updated Aug 28, 2023Aug 28, 2023

• PPN2V

  Public
  Code Implementation for the publication "Fully Unsupervised Probabilistic Noise2Void"

  unsupervised-denoisingnoise-model

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •9•55•2•0•Updated Aug 28, 2023Aug 28, 2023

• howto-collector

  Public
  Java

  •0•0•0•2•Updated Apr 14, 2023Apr 14, 2023

• versioning_fiji

  Public
  Java

  •0•0•0•1•Updated Apr 14, 2023Apr 14, 2023

• PyTr2d

  Public
  Python based Tracking in 2D

  Python

  •

  BSD 2-Clause "Simplified" License

  •0•1•0•0•Updated Apr 12, 2023Apr 12, 2023

• motile

  Public
  Multi-Object Tracker using Integer Linear Equations

  Python

  •

  MIT License

  •5•0•0•0•Updated Mar 24, 2023Mar 24, 2023

• LabelEditor

  Public
  Java

  •

  BSD 2-Clause "Simplified" License

  •3•4•14•1•Updated Feb 11, 2023Feb 11, 2023

• labkit-remote-drawing

  Public
  JavaScript

  •0•1•0•8•Updated Dec 10, 2022Dec 10, 2022