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okunator /cellseg_models.pytorch

Encoder-Decoder Cell and Nuclei segmentation models

ai ml pytorch microscopy cell-segmentation digital-pathology panoptic-segmentation nuclei-segmentation tissue-segmentation cellpose timm stardist hovernet omnipose

UpdatedApr 23, 2025
Python

Lewislou /cellseg-sribd

The code implementation for cell segmentation

pytorch cell-segmentation stardist hovernet

UpdatedJul 21, 2023
Python

Cytomine-ULiege /S_CellDetect_Stardist_HE_ROI

Cell (Nuclei) Detection in ROI using Stardist

deep-learning stardist

UpdatedJul 25, 2023
Python

qupath-extension-openvino

dkurt /qupath-extension-openvino

Intel OpenVINO extension for QuPath, a digital pathology platform

java deep-learning intel digital-pathology openvino qupath stardist

UpdatedDec 7, 2022
Java

Koldim2001 /Segmentation_cells-nuclei

Instance & Semantic сегментация клеток и ядер на цитологических изображениях (мазок Папаниколау)

semantic-segmentation instance-segmentation stardist watershed-segmentation

UpdatedDec 27, 2022
Jupyter Notebook

ajinkya-kulkarni /PySpatialHistologyAnalysis

Package using StarDist and Python that performs object detection and spatial analysis on H&E images

python image-processing segmentation spatial-analysis histopathology stardist histopathology-image-analysis digital-histology

UpdatedNov 13, 2024
Python

ajinkya-kulkarni /PyOrganoIDNet

This repository provides StarDist and CellPose models, meticulously trained on a large dataset of Pancreatic Ductal Adenocarcinoma organoids co-cultured with immune cells. Pre-print available athttps://www.biorxiv.org/content/10.1101/2024.02.12.580032v1. Demo application available athttps://segmentorganoids.streamlit.app/

deep-learning organoids cellpose stardist organoid-segmentation

UpdatedJul 5, 2024
Jupyter Notebook

Scaramir /orgaSeg

Pipeline meant to segment and classify organoids, or any other blob-like structures (star-convex polygons). Microscopy images can be easily annotated in QuPath and automatically processed afterwards to count the class distribution within each image using this pipeline (TIF files will be converted to grayscale)

workflow deep-learning classification segmentation resnet grid-search hyperparameter-tuning stardist organoid-segmentation

UpdatedDec 15, 2024
Python

Noza23 /myovision

Quantification of Myogenic Differentiation using Deep Learning

computer-vision musculoskeletal instance-segmentation microscopy-images stardist segment-anything myovision myotubes myogenesis

UpdatedFeb 26, 2024
Jupyter Notebook

KanNudimmud /cell_segmentation

Cell segmentations using Stardist and Watershed method.

python segmentation watershed cell-nuclei stardist

UpdatedJul 7, 2023
Jupyter Notebook

whyclos /nuclei-segmentation-neural-nw

nuclei segmentation by treshold, watershed methods & stardist neural network (educational project)

neural-networks semantic-segmentation instance-segmentation qupath stardist

UpdatedFeb 13, 2023

davetornado /myovision-report

Myovision Consulting Report

computer-vision musculoskeletal instance-segmentation microscopy-images stardist segment-anything myovision myotubes

UpdatedMar 1, 2024
TeX

sebi06 /create_labels_stardist

script to create labels (for training a deep neural network) based on nucleus segmentation using StarDist (still experimental)

python image-processing microscopy stardist

UpdatedNov 15, 2024
Python

aditya-10012002 /Nuclei-Segmentation-Using-Stardist

NUCLEI SEGMENTATION USING STARDIST AND PYTHON IN GOOGLE COLAB

machine-learning computer-vision conda python3 fuji nuclei-segmentation stardist

UpdatedMay 6, 2024
Jupyter Notebook

Cytomine-ULiege /task-stardist

Integration of Stardist algorithm as a Cytomine task

cytomine stardist

UpdatedMar 18, 2025
Python

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