Repositories list

• digital_slide_archive

  Public
  The official deployment of the Digital Slide Archive and HistomicsTK.

  hacktoberfesthistologybioimage-informatics+ 2digital-slide-archivehistomicstk

  Python

  •

  Apache License 2.0

  •52•112•29•0•Updated Feb 25, 2025Feb 25, 2025

• ImageDePHI

  Public
  Python

  •

  Apache License 2.0

  •0•8•17•1•Updated Feb 25, 2025Feb 25, 2025

• HistomicsTK

  Public
  A Python toolkit for pathology image analysis algorithms.

  pythonmachine-learningcomputer-vision+ 4histologymedical-image-processingbioimage-informaticsdigital-slide-archive

  Python

  •

  Apache License 2.0

  •117•410•22•1•Updated Feb 25, 2025Feb 25, 2025

• dive-dsa

  Public
  DIVE for Digital Slide Archive

  Vue

  •

  Apache License 2.0

  •0•1•8•3•Updated Feb 20, 2025Feb 20, 2025

• girder_assetstore

  Public
  A Girder plugin for connecting remote Girder instances as Assetstores

  Python

  •

  Other

  •0•0•4•0•Updated Feb 19, 2025Feb 19, 2025

• DSA-WSI-DeID

  Public
  A workflow for redacting PHI from whole slide images (WSI) based on the Digital Slide Archive.

  Python

  •

  Apache License 2.0

  •8•15•15•0•Updated Feb 19, 2025Feb 19, 2025

• wsi-superpixel-guided-labeling

  Public
  Vue

  •

  Other

  •6•3•30•1•Updated Feb 18, 2025Feb 18, 2025

• girder_volview

  Public
  Python

  •

  Other

  •2•3•5•0•Updated Feb 14, 2025Feb 14, 2025

• HistomicsUI

  Public
  A Girder plugin for pathology image annotations and analysis.

  pythonhistologydigital-slide-archive+ 1bioimage-infomatics

  JavaScript

  •

  Apache License 2.0

  •22•64•49•1•Updated Feb 13, 2025Feb 13, 2025

• large-image-utilities

  Public
  Experimental utilities for use with large_image

  Python

  •

  Apache License 2.0

  •1•3•0•0•Updated Feb 4, 2025Feb 4, 2025

• tifftools

  Public
  Pure Python tools for reading and writing all TIFF IFDs, sub-IFDs, and tags.

  Python

  •

  Other

  •5•51•4•0•Updated Feb 3, 2025Feb 3, 2025

• import-tracker

  Public
  A Girder plugin for data import tracking in HistomicsUI

  Python

  •

  Other

  •2•2•7•1•Updated Nov 25, 2024Nov 25, 2024

• histomicstk-extras

  Public
  Python

  •

  Other

  •2•1•0•0•Updated Oct 2, 2024Oct 2, 2024

• HistomicsStream

  Public
  A whole-slide image reader for TensorFlow

  Python

  •

  Apache License 2.0

  •6•23•9•0•Updated Oct 1, 2024Oct 1, 2024

• superpixel-classification

  Public
  A test cli for classifying superpixels with arbitrary labels

  hacktoberfest

  Python

  •

  Other

  •4•5•0•0•Updated Sep 24, 2024Sep 24, 2024

• ALBench

  Public
  Benchmarking tool for evaluating Active Learning strategies for machine learning

  Python

  •

  Apache License 2.0

  •3•5•3•0•Updated Sep 4, 2024Sep 4, 2024

• histomics_load_testing

  Public
  HCL

  •

  Apache License 2.0

  •0•0•3•0•Updated Jul 18, 2024Jul 18, 2024

• girder-client-mount

  Public
  Python

  •

  Apache License 2.0

  •0•1•0•0•Updated Apr 1, 2024Apr 1, 2024

• girder-clamav

  Public
  Python

  •

  Other

  •0•0•0•0•Updated Mar 28, 2024Mar 28, 2024

• annotation-tracker

  Public
  A Girder plugin for annotation tracking in HistomicsUI

  JavaScript

  •

  Other

  •0•4•2•2•Updated Feb 15, 2024Feb 15, 2024

• histoqc-dsa-plugin

  Public
  Python

  •2•1•3•0•Updated Feb 1, 2024Feb 1, 2024

• dsa-run-custom-ai-models

  Public
  Python

  •2•2•2•0•Updated Dec 15, 2023Dec 15, 2023

• histomics-tour

  Public
  Python

  •

  Other

  •0•0•0•2•Updated Aug 1, 2023Aug 1, 2023

• large_image_source_isyntax

  Public
  A large_image source using the Philips library for isyntax files

  Python

  •

  Apache License 2.0

  •0•2•0•0•Updated Jun 16, 2023Jun 16, 2023

• HistomicsDetect

  Public
  A package for cell detection models using TensorFlow

  Python

  •

  Apache License 2.0

  •1•4•10•0•Updated Mar 20, 2023Mar 20, 2023

• CNNCellDetection

  Public
  This repository contains adaptations of the state-of-the-art deep learning based object detection models for the detection of cell nuclei in histology images

  Python

  •

  Apache License 2.0

  •3•27•0•22•Updated Dec 8, 2022Dec 8, 2022

• ImageDePHI-Phase-I

  Public
  Whole Slide Image Deidentification for PHI

  Python

  •

  Apache License 2.0

  •0•2•13•0•Updated Aug 27, 2021Aug 27, 2021

• HTAN

  Public
  Python

  •

  Other

  •1•0•4•0•Updated Jun 7, 2021Jun 7, 2021

• digitalslidearchive.info

  Public
  Documentation for installing and maintaining the Digital Slide Archive, Girder, and HistomicsTK

  Jupyter Notebook

  •0•10•2•0•Updated Jul 8, 2020Jul 8, 2020

• DigitalSlideArchive.github.io

  Public
  This is a redirect to the main documentation

  HTML

  •0•0•0•0•Updated Mar 11, 2020Mar 11, 2020