DeepMicroscopy - Generating Deep Insights from Deep Learning in Microscopy

DeepMicroscopy - Generating Deep Insights from Deep Learning in Microscopy's repositories

SlideRunner

SlideRunner is a tool for massive cell annotations in whole slide images

Language:PythonGPL-3.075 9 30

Exact

An open source online platform for collaborative image labeling of almost everything

Language:JavaScriptMIT55 4 52

MITOS_WSI_CCMCT

Large-Scale Canine Cutaneous Mast Cell Tumor Dataset for Mitotic Figure Assessment on Whole Slide Images

Language:Jupyter Notebook28 2 2

MIDOG

MItosis DOmain Generalization Challenge 2021/2022

Language:Python14 3 5

MIDOGpp

A large, multi-domain mitotic Figure Dataset

Language:PythonMIT10 3 8

CanineCutaneousTumors

Language:Jupyter Notebook8 1 1

MIDOG_reference_docker

Reference implementation of domain-adversarial training on a RetinaNet (to use as template in the MIDOG challenge)

Language:Python8 1 4

Cox_AMIL

Code for our BVM workshop submission "Attention-based Multiple Instance Learning for Survival Prediction on Lung Cancer Tissue Microarrays"

Language:Jupyter NotebookGPL-3.06 1 1

MultiScanner_SCC

Language:Python6 10

AdaptiveRegionSelection

Language:Python5 10

CrossScannerRegistration

Language:Python3 10

QuiltCleaner

Automatic cleaning of the QUILT-1M pathology dataset

Language:Jupyter NotebookMIT300

Results-Exact-Study

Language:Jupyter Notebook2 30

AnonymizeSlide

Delete the label from a whole-slide image

Language:PythonGPL-2.0100

EXACT-QueueRunner

Repository for EXACT QueueRunner, a service that executes processing for jobs available on EXACT.

Language:PythonMIT1 10

HierarchicalFCOS

Automatic Subtyping for Atypical and Typical Mitosis using a Hierarchical Anchor-Free Object Detector

Language:Jupyter NotebookMIT100

VisualRepresentationSurvey

Language:Jupyter Notebook1 10

AIRoV

Language:JavaScript010

CD3-Detection

Language:Python000

COSAS

000

EXACT-Sync

Rest API sync with the EXACT Server https://github.com/ChristianMarzahl/Exact

Language:PythonMIT000

FELIX

Felinae Evaluation with Layperson and ML Interaction EXperience Dataset (FELIX)

Language:Jupyter NotebookNOASSERTION000

Histopathology-Datasets

Ressources of histopathology datasets

000

MIDOG_evaluation_docker

Evaluation container for the MIDOG 2021 challenge on grand-challenge.org

Language:Python010

MIDOG_LaTeX_template

LaTeX Template for short papers for the MIDOG challenge, based upon the HenriquesLab bioRxiv template

Language:TeX01 1

nnUNet-for-pathology

Adapted nnUNet framework with additional features to suit the requirements for pathology applications

Apache-2.0000

openslide

C library for reading virtual slide images

Language:CNOASSERTION000

Prototype-sampling

Language:Python000

SlideRunner_dataAccess

Data access routines (database and images) for SlideRunner

Language:PythonGPL-3.0000

WsiRegistration

Robust quad-tree based registration on whole slide images (Marzahl et al.)

MIT000