caner-ercan

ABRS-P

Deep learning predicts sensitivity to atezolizumab-bevacizumab from digital slides of liver cancer

PseMix

[IEEE TMI 2024] Pseudo-Bag Mixup Augmentation for Multiple Instance Learning-Based Whole Slide Image Classification

FriendsDontLetFriends

Friends don't let friends make certain types of data visualization - What are they and why are they bad.

python_for_microscopists

https://www.youtube.com/channel/UC34rW-HtPJulxr5wp2Xa04w?sub_confirmation=1

interpreting-accuracy

R-script to analyze interpreting accuracy

experimental

Practical-Deep-Learning-For-Coders

Material for my run of Fast.AI

Deep-Tumour-Spheroid

figure

ZeroCostDL4Mic

ZeroCostDL4Mic: A Google Colab based no-cost toolbox to explore Deep-Learning in Microscopy

Bio-image_Analysis_with_Python

Lecture materials "Bio-image analysis, biostatistics, programming and machine learning for computational biology" at the Center of Molecular and Cellular Bioengineering (CMCB) / University of Technology, TU Dresden

WSI-Segmentation-Patch

Whole Slide Images Segmentation using Patch UNet

NCRF

Cancer metastasis detection with neural conditional random field (NCRF)

Practical-Deep-Learning-for-Coders-2.0

Notebooks for the "A walk with fastai2" Study Group and Lecture Series

deepslide

Code for the Nature Scientific Reports paper "Pathologist-level classification of histologic patterns on resected lung adenocarcinoma slides with deep neural networks." A sliding window framework for classification of high resolution whole-slide images, often microscopy or histopathology images.

QuPathTools

Exporting and Importing Annotation from and to QuPath

compath

deep learning pipeline repository for the paper "Geospatial immune variability illuminates differential evolution of lung adenocarcinoma"

interpretAI_DigiPath

Hands-on Sessions 1 and 2 at the Building Interpretable AI for Digital Pathology AMLD workshop 2021

introduction_to_ml_with_python

Notebooks and code for the book "Introduction to Machine Learning with Python"

ml-training-camp

paquo

PAthological QUpath Obsession - QuPath and Python conversations

hover_net

Simultaneous Nuclear Instance Segmentation and Classification in H&E Histology Images.

QuPath-Scripting-Tools

Toolkit to help develop and run QuPath scripts from Eclipse and other IDEs, including over remote connections. (See README.md for more information)

ZoteroQuickLook

Implements QuickLook in Zotero

stardist-imagej

StarDist plugin for ImageJ

QuPathGeoJSONImportExport

Coincides with blogpost for using geojson and shapely

qupath

QuPath - Bioimage analysis & digital pathology