vankhoa21991

yolact

A simple, fully convolutional model for real-time instance segmentation.

mmdetection

OpenMMLab Detection Toolbox and Benchmark

prophet

Tool for producing high quality forecasts for time series data that has multiple seasonality with linear or non-linear growth.

cvat

Annotate better with CVAT, the industry-leading data engine for machine learning. Used and trusted by teams at any scale, for data of any scale.

MaskTrackRCNN

MaskTrackRCNN for video instance segmentation based on mmdetection

wsi-to-dicom-converter

Conversion tool/library for converting whole slide images to DICOM

Fast_WSI_Color_Norm

Codes for Fast GPU-Enabled Color Normalization of Whole Slide Images in Digital Pathology

LungNet

This is supplementary material for the manuscript: "Semantic Segmentation of Pathological Lung Tissue with Dilated Fully Convolutional Networks" M. Anthimopoulos, S. Christodoulidis, L. Ebner, A. Christe and S. Mougiakakou IEEE Journal of Biomedical and Health infomatics (2018)

PathomicFusion

Fusing Histology and Genomics via Deep Learning - IEEE TMI

Lymphoma-Cancer-Classification

A PyTorch implementation for differentiating between different types of lymphoma cancer

slidedb

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

pcam

The PatchCamelyon (PCam) deep learning classification benchmark.

NucleiSegmentation

cGAN-based Multi Organ Nuclei Segmentation

tissueloc

Whole Slide Digital Pathology Image Tissue Localization

Pathology-GAN

Corresponding code of 'Quiros A.C., Murray-Smith R., Yuan K. Pathology GAN: Learning deep representations of cancer tissue. Proceedings of The 3rd International Conference on Medical Imaging with Deep Learning (MIDL) 2020'

computervision-recipes

Best Practices, code samples, and documentation for Computer Vision.

qupath-bioformats-extension

Extension to add Bio-Formats image support - **QuPath v0.1.2 only**

bioformats

Bio-Formats is a Java library for reading and writing data in life sciences image file formats. It is developed by the Open Microscopy Environment. Bio-Formats is released under the GNU General Public License (GPL); commercial licenses are available from Glencoe Software.

libvips

A fast image processing library with low memory needs.

detectron2

Detectron2 is a platform for object detection, segmentation and other visual recognition tasks.

pyvips

python binding for libvips using cffi

HistoQC

HistoQC is an open-source quality control tool for digital pathology slides

pathology-images-analysis-using-CNN

Scripts for https://www.nature.com/articles/s41598-018-27707-4, using Convolutional Neural Network to detect lung cancer tumor area

MIL-nature-medicine-2019

cluster-mil

A multiple instance learning technique for training CNNs using coarse/weak labels.

labelImg

LabelImg is now part of the Label Studio community. The popular image annotation tool created by Tzutalin is no longer actively being developed, but you can check out Label Studio, the open source data labeling tool for images, text, hypertext, audio, video and time-series data.

python-wsi-preprocessing

Python Whole Slide Image Preprocessing

deep-histopath

A deep learning approach to predicting breast tumor proliferation scores for the TUPAC16 challenge

amazon-sagemaker-examples

Example 📓 Jupyter notebooks that demonstrate how to build, train, and deploy machine learning models using 🧠 Amazon SageMaker.

mask-rcnn-tensorflow

Fork of Tensorpack to make breaking performance improvements to the Mask RCNN example. Training is approximately 2x faster than the original implementation on AWS.