swvanderlaan/slideToolKit Fork of bglnelissen/slideToolkit

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

Language: Shell - Size: 3.69 GB - Last synced: about 24 hours ago - Pushed: 1 day ago - Stars: 5 - Forks: 1

arquolo/bipl

Big Image Python Library

Language: Python - Size: 256 KB - Last synced: 3 days ago - Pushed: 3 days ago - Stars: 3 - Forks: 0

smujiang/WSITools

Tools for whole slide image (WSI) processing. Especially for (pairwise) patch extraction, annotation parsing and data preparation for deep learning purposes.

Language: Python - Size: 5.72 MB - Last synced: 8 days ago - Pushed: 9 days ago - Stars: 30 - Forks: 11

haranrk/DigiPathAI

Tool to visualize gigantic pathology images and use AI to segment cancer cells and present as an overlay

Language: JavaScript - Size: 138 MB - Last synced: about 16 hours ago - Pushed: 8 months ago - Stars: 62 - Forks: 25

BiologyTools/BioGTK

A cross platform version of Bio library & program. Bio is a library & program for annotating, & editing various microscopy imaging formats using Bioformats supported images. including whole slide, pyramidal & series.

Language: C# - Size: 146 MB - Last synced: 15 days ago - Pushed: 16 days ago - Stars: 8 - Forks: 2

libvips/libvips

A fast image processing library with low memory needs.

Language: C - Size: 95.7 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 8,959 - Forks: 637

ysbecca/py-wsi

Python package for dealing with whole slide images (.svs) for machine learning, particularly for fast prototyping. Includes patch sampling and storing using OpenSlide. Patches may be stored in LMDB, HDF5 files, or to disk. It is highly recommended to fork and download this repository so that personal customisations can be made for your work.

Language: Jupyter Notebook - Size: 8.24 MB - Last synced: 20 days ago - Pushed: about 4 years ago - Stars: 155 - Forks: 90

jopo666/HistoPrep

Preprocessing module for large histological images

Language: Python - Size: 27.7 MB - Last synced: about 2 months ago - Pushed: 11 months ago - Stars: 15 - Forks: 3

DSLituiev/slideslicer

a toolbox for manipulation of digital pathology slides and annotations

Language: Jupyter Notebook - Size: 7.32 MB - Last synced: about 2 months ago - Pushed: almost 4 years ago - Stars: 19 - Forks: 4

GoogleCloudPlatform/wsi-to-dicom-converter

Conversion tool/library for converting whole slide images to DICOM

Language: C++ - Size: 7.79 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 63 - Forks: 25

Anivader/CPATH

This codebase provides computational pipelines for implementing Deep Learning-assisted Whole Slide Image (WSI) classification

Language: Jupyter Notebook - Size: 3.75 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 0 - Forks: 0

jgamper/compay-syntax

:microscope: Syntax - the arrangement of whole-slide-images and their image tiles to create well-formed computational pathology pipelines.

Language: Python - Size: 43.5 MB - Last synced: about 16 hours ago - Pushed: over 1 year ago - Stars: 55 - Forks: 1

girder/large_image_wheels

manylinux wheel files for girder/large_image dependencies

Language: Dockerfile - Size: 3.71 GB - Last synced: 5 months ago - Pushed: 5 months ago - Stars: 8 - Forks: 4

yjg30737/pyqt-wsi-viewer

PyQt WSI(Whole Slide Images) viewer

Language: Roff - Size: 19.3 MB - Last synced: 4 months ago - Pushed: 6 months ago - Stars: 0 - Forks: 0

InsightSoftwareConsortium/ITKIOOpenSlide

An ITK ImageIO module for the OpenSlide library.

Language: C++ - Size: 110 KB - Last synced: about 1 month ago - Pushed: almost 2 years ago - Stars: 11 - Forks: 9

agam-kashyap/3Dhistopathology Fork of inviwo/inviwo

3D visualisation using Inviwo and OpenSlide

Language: C++ - Size: 646 MB - Last synced: 11 months ago - Pushed: almost 3 years ago - Stars: 3 - Forks: 4

compbio-ai/openslide-bundle

A python package bundling the openslide C and python libraries for automated path management

Language: JavaScript - Size: 23.3 MB - Last synced: 12 months ago - Pushed: 12 months ago - Stars: 1 - Forks: 0

lucasrla/wsi-preprocessing

Simple library for preprocessing histopathological whole-slide images (WSI) into tiles (a.k.a. patches) towards deep learning

Language: Python - Size: 18.6 KB - Last synced: about 1 year ago - Pushed: over 3 years ago - Stars: 25 - Forks: 6

VanAndelInstitute/svs2vsv 📦

Process Aperio SVS images in S3 with vips/openslide.

Language: Dockerfile - Size: 50.8 KB - Last synced: about 1 year ago - Pushed: over 3 years ago - Stars: 0 - Forks: 1

hurryhuang1007/Xslide 📦

An application that can quickly view large images like .tif, .svs, .bif, .hdpi, .vms and .mrxs file(s).

Language: JavaScript - Size: 62.9 MB - Last synced: about 1 year ago - Pushed: over 2 years ago - Stars: 10 - Forks: 2

Dart9000/OpenX

Digital Open-source pathology tool based on OpenSlide with Manipulation & annotations feature.

Language: Python - Size: 4.98 MB - Last synced: about 1 year ago - Pushed: over 2 years ago - Stars: 1 - Forks: 1

deephealthproject/ecvl

European Computer Vision Library (ECVL). A general-purpose computer vision library developed to support healthcare use cases within the DeepHealth project, with the aim of facilitating the integration of existing state-of-the-art libraries.

Language: C++ - Size: 11.3 MB - Last synced: about 1 year ago - Pushed: about 2 years ago - Stars: 12 - Forks: 1

jammy-dodgers/gophenslide

Unofficial Go bindings for OpenSlide

Language: Go - Size: 28.3 KB - Last synced: 10 months ago - Pushed: over 3 years ago - Stars: 2 - Forks: 4

schlauerlauer/openslides-docker

Language: Python - Size: 11.7 KB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 0 - Forks: 0

brian220/SvsScanner

Use the openslide Library to process the WSI image

Language: Python - Size: 30.3 KB - Last synced: 7 months ago - Pushed: almost 6 years ago - Stars: 1 - Forks: 0

IAmS4n/TensorBoard_Plugin_WSI

A plugin for TensorBoard to show WSI images. The plugin is based on Deep Zoom Image (DZI).

Language: JavaScript - Size: 1.26 MB - Last synced: about 1 year ago - Pushed: over 3 years ago - Stars: 3 - Forks: 0

Mudit219/3Dhistopathology Fork of agam-kashyap/3Dhistopathology

3D visualisation using Inviwo and OpenSlide

Language: C++ - Size: 646 MB - Last synced: 11 months ago - Pushed: almost 3 years ago - Stars: 1 - Forks: 0

BioImageInformatics/svs_reader

Convenient interface for generating tiles from Aperio SVS format images

Language: Python - Size: 55.7 KB - Last synced: about 1 year ago - Pushed: almost 5 years ago - Stars: 2 - Forks: 1

leesei/openslide-prop2json

Parse OpenSlide properties (generated by `openslide-show-properties`) to JSON

Language: JavaScript - Size: 62.5 KB - Last synced: 13 days ago - Pushed: over 5 years ago - Stars: 2 - Forks: 0