e-learning
Quantification of single-molecule RNA fluorescence in situ hybridization (smFISH) in yeast cell lines
Abstract
The objective is to detect multiple bright spots in an image using a basic computer vision and image processing
About This Material
This is a Hands-on Tutorial from the GTN which is usable either for individual self-study, or as a teaching material in a classroom.
Questions this will address
- How do I analyze fluorescence markers in a 2D image?
- How do I create labels from the detected bright spots?
- How can I count the number of detected spots automatically?
Learning Objectives
- Perform a 2D spots/blobs detection in an image fetched from IDR
- Count the detected spots and blobs
Licence: Creative Commons Attribution 4.0 International
Keywords: IDR dataset, Imaging, Overlay, Rasterisation, Spot detection
Target audience: Students
Resource type: e-learning
Version: 5
Status: Active
Prerequisites:
- FAIR Bioimage Metadata
- Introduction to Galaxy Analyses
- Introduction to Image Analysis using Galaxy
- REMBI - Recommended Metadata for Biological Images – metadata guidelines for bioimaging data
Learning objectives:
- Perform a 2D spots/blobs detection in an image fetched from IDR
- Count the detected spots and blobs
Date modified: 2025-11-26
Date published: 2025-03-20
Contributors: Beatriz Serrano-Solano, Björn Grüning, Leonid Kostrykin, Riccardo Massei, Saskia Hiltemann
Scientific topics: Imaging
External resources:
Activity log
