histology

There are 79 repositories under histology topic.

  • qupath/qupath

    QuPath - Bioimage analysis & digital pathology

    Language:Java98157774266

  • DigitalSlideArchive/HistomicsTK

    A Python toolkit for pathology image analysis algorithms.

    Language:Python37123297113
  • slideflow

    jamesdolezal/slideflow

    Deep learning library for digital pathology, with both Tensorflow and PyTorch support.

    Language:Python2251719336

  • ImagingLab/ICIAR2018

    Two-Stage Convolutional Neural Network for Breast Cancer Histology Image Classification. ICIAR 2018 Grand Challenge on BreAst Cancer Histology images (BACH)

    Language:Python203141477

  • mahmoodlab/PORPOISE

    Pan-Cancer Integrative Histology-Genomic Analysis via Multimodal Deep Learning - Cancer Cell

    Language:Jupyter Notebook16841332

  • mahmoodlab/TOAD

    AI-based pathology predicts origins for cancers of unknown primary - Nature

    Language:Python16751244

  • axondeepseg/axondeepseg

    Axon/Myelin segmentation using Deep Learning

    Language:Python1121343732

  • DigitalSlideArchive/digital_slide_archive

    The official deployment of the Digital Slide Archive and HistomicsTK.

    Language:Python101178448

  • mahmoodlab/SISH

    Fast and scalable search of whole-slide images via self-supervised deep learning - Nature Biomedical Engineering

    Language:Python914726

  • PolarBean/DeepSlice

    A python package which aligns histology to the Allen Brain Atlas and Waxholm rat atlas using deep learning.

    Language:Python7174316

  • MICA-MNI/micaopen

    Open Scripts and pipelines from the Multimodal Imaging and Connectome Analysis Lab at the Montreal Neurological Institute

    Language:MATLAB7017237

  • manuel-munoz-aguirre/PyHIST

    A pipeline to segment tissue from the background in histological images

    Language:Python5533013

  • DigitalSlideArchive/HistomicsUI

    A Girder plugin for pathology image annotations and analysis.

    Language:JavaScript531712018

  • yiqings/RandStainNA

    RandStainNA: Simple and efficient augmentations for histology [MICCAI 2022]

    Language:Python461812

  • mahmoodlab/PANTHER

    Morphological Prototyping for Unsupervised Slide Representation Learning in Computational Pathology - CVPR 2024

    Language:Jupyter Notebook352

  • ciccalab/SIMPLI

    SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.

    Language:R33554

  • AIRMEC/im4MEC

    Code for the im4MEC model described in the paper 'Interpretable deep learning model to predict the molecular classification of endometrial cancer from haematoxylin and eosin-stained whole-slide images: a combined analysis of the PORTEC randomised trials and clinical cohorts'.

    Language:Python322512

  • Borda/dataset-histology-landmarks

    Dataset: landmarks for registration of histology images

    Language:Python31618

  • mahmoodlab/CRANE

    Deep learning enabled assessment of cardiac allograft rejection from endomyocardial biopsies- Nature Medicine

    Language:Python28218

  • MWod/ANHIR_MW

    Software used by the AGH team during the ANHIR challenge.

    Language:Python26237

  • nauyan/NucleiSegmentation

    The repository contains a simple pipeline for training Nuclei Segmentation Datasets of Histopathology Images.

    Language:Python26114

  • MWod/DeepHistReg

    Code used to create the DeepHistReg submission to the ANHIR challenge.

    Language:Python2441014
  • biscuit

    jamesdolezal/biscuit

    Bayesian Inference of Slide-level Confidence via Uncertainty Index Thresholding

    Language:Python22111

  • DSLituiev/slideslicer

    a toolbox for manipulation of digital pathology slides and annotations

    Language:Jupyter Notebook19304

  • yiqings/HEGnnEnhanceCnn

    Graph + Image Bimodal Deep Learning for Histology Image Classification

    Language:Python16122

  • BiologyTools/BioImager

    A .NET microscopy imaging application based on Bio library. Supports various microscopes by using imported libraries & GUI automation. Supports XInput game controllers to move stage, take images, run ImageJ macros on images or Bio C# scripts.

    Language:C#11204

  • c-arthurs/QuArray

    An application for exporting and analysing tissue array whole slide image files

    Language:Python8104

  • lely475/ocelot23algo

    Approach that won 3rd place in the OCELOT 2023 Challenge. Multi-organ H&E-based deep learning model for cell detection, applicable for tumor cellularity/ purity/ content estimation.

    Language:Python7120

  • sotiraslab/SC-MIL

    This repo for the paper titled "SC-MIL: Sparsely Coded Multiple Instance Learning for Whole Slide Image Classification"

    Language:Python7320

  • xhelenfu/CNN_Segmentation_Histology

    Segmentation of histological images and fibrosis identification with a convolutional neural network

    Language:Python6206

  • Fouga/SliVo

    2D - 3D slice-to-volume registration pipeline

    Language:MATLAB5110

  • jurgenizer/slidedb

    A virtual slide viewer (virtual microscope) for extremely high-resolution histopathology images. Made with Python, Flask and Leaflet.

    Language:HTML5201
  • slideToolKit

    swvanderlaan/slideToolKit

    slideToolkit: a free toolset for analyzing wholeslide high-resolution digital histological images.

    Language:Shell54171

  • BiomechDevOps/Histology-Image-Viewer-and-Converter

    Histology Image Viewer and Converter

    3111

  • LorenzRutkevich/Seize-Disease

    My project for the national ai competition in Germany 2023

    Language:Jupyter Notebook3200

  • marleysudbury/detect-diagnose-tumours

    Final year project. Analysis and diagnosis of histology images of tumours.

    Language:Python32101