lucas-sancere

QuPath_Codes

Collection of some groovy scripts for QuPath. Public repo but made mostly for personal use.

hover_net

Simultaneous Nuclear Instance Segmentation and Classification in H&E Histology Images.

PyInotify

An efficient and elegant inotify (Linux filesystem activity monitor) library for Python. Python 2 and 3 compatible.

segmentation_models

Segmentation models with pretrained backbones. Keras and TensorFlow Keras.

unet

unet for image segmentation

BIRL

BIRL: Benchmark on Image Registration methods with Landmark validations

CAREforCurie

CARE deep learning AI (CSBDeep) modified and used to denoise and project images of epithelial cells in the context of research at Curie Institute Paris.

CSBDeep

Image restoration for fluorescence microscopy

dataforgoodfr.github.io

ML_for_ECMdegradation

Comparison of Machine Learning models performing pixel-wise classification of extracellular matrix degradation due to modified human cells.

Notum_Mask_Generator

Deep Learning model to perform binary segmentation of drosophila notum images at cellular scale.

deep-histopath

A deep learning approach to predicting breast tumor proliferation scores for the TUPAC16 challenge

DRFNS

This repository contains the code necessary in order to reproduce the work contained in the submitted paper: "Segmentation of Nuclei in Histopathology Images by deep regression of the distance map".

EmbedSeg

Code Implementation for the preprint "Embedding-based Instance Segmentation for Microscopy Images"

EPySeg

handson-ml2

A series of Jupyter notebooks that walk you through the fundamentals of Machine Learning and Deep Learning in Python using Scikit-Learn, Keras and TensorFlow 2.

hovernet_inference

HoVer-Net inference code for simultaneous nuclear segmentation and classification

IJCurieMacros

Image J Macros for Curie Users

lit-hydra-demo

A concept for using PyTorch Lightning + Hydra

mmsegmentation

Add customization to OpenMMLab Semantic Segmentation Toolbox and Benchmark.

momix-notebook

n2v

This is the implementation of Noise2Void training.

napari-training-course

Lectures for a napari training course

ObjectDetectionYolo

segmenter

[ICCV2021] Official PyTorch implementation of Segmenter: Transformer for Semantic Segmentation

Smoothly-Blend-Image-Patches

Using a U-Net for image segmentation, blending predicted patches smoothly is a must to please the human eye.

stardist

StarDist - Object Detection with Star-convex Shapes

UniNet

Unified Architecture Search with Convolution, Transformer, and MLP (ECCV 2022)

yolov3-keras-tf2

yolo(v3/v4) implementation in keras and tensorflow 2.2

ZeroCostDL4Mic

ZeroCostDL4Mic: A Google Colab based no-cost toolbox to explore Deep-Learning in Microscopy