Spatial Macrophage Map

A comprehensive spatial visualization of immunofluorescence slides through our dedicated viewer.

Introduction

We have developed a web-based slide viewer, inspired by ImmunoViewer, specifically tailored to display detailed immunofluorescence scans.

Features

1. Slide Viewer: View high-quality, tiled immunofluorescence slides here.

2. High Scalability: Using of Google Cloud Platform, our viewer ensures quick loading times and efficient data access.

3. Interactive Annotations: Slides hosted on Firebase.

Technical Overview

Image Tiling Process

Images were processed and segmented into tiles for efficient loading using ImmunoViewer:

ImmunoViewerProcess -t [number of threads] [data_directory]

These tiles are then uploaded to a dedicated Google Cloud Platform bucket to ensure quick access and reliable storage.

Annotations Hosting

• Firebase Integration: Annotations on each slide are saved in real-time using a Firebase cloud function.
• Firestore Database: Our Firestore database retains all annotations.

Project Hosting

The UI is hosted on GitHub as a project page, enabling easy accessibility for the community and researchers.

Contribute & Feedback

We welcome collaboration and feedback. The source code and more details can be found on our GitHub repository.