Ready-to-run Docker images for sequencing analysis

The Open Data Editor (ODE) is a no-code application to explore and validate tabular data in a simple way. Forever free and open source project powered by the Frictionless Framework.

Hugo based website with markdown + reveal slides for a workshop

Read and write ImageJ ROI format.

Public repository for Agent Skills

A Probably Private mini-course introducing AI/ML security via interactive videos and hands-on examples.

Programm to create folderstructures and metadata files (like .json ...) based on templates

Program and links to the material for the GloBIAS Training School 2025, Kobe, Japan.

A Python package implementing the DALIA Interchange Format (DIF) for open educational resources (OERs)

Supporting python library for "Deep Learning for Biology".

MI-Lab exercise which deals with REST-Services using BAHMNI

🔬 MCP server for AI-powered napari control. Connect Claude, ChatGPT, Cursor, and other LLMs to napari for interactive image analysis. Perfect for automating microscopy workflows and building intell…

git-bob uses AI to solve Github-issues. It runs inside the Github CI, no need to install anything on your computer.

Contains material for the 2025 EMBO Practical course "Advanced methods in bioimage analysis" https://www.embl.org/about/info/course-and-conference-office/events/bia25-01/

NextFlow 101

Python Jupyter notebooks for BioImageAnalysis, GPU-accelerated image processing, bio-image data science and more

This repository serves as playground for the CICD DevOps workshop at ScaDS.AI GA 09.2025

Deep-learning based semantic and instance segmentation for 3D Electron Microscopy and other bioimage analysis problems based on pytorch.

napari plugin to open CZI image files and their metadata

coarse grained performance monitoring in Jupyter

A collection of workshop materials for exploring prompting techniques by building a Snake game in Cursor.