slides
Nucleoli Segmentation <br> & <br> Feature Extraction <br> using CellProfiler
Abstract
What is the nucleoli?
Questions this will address
- How do I run an image analysis pipeline on public data using CellProfiler?
- How do I analyse the DNA channel of fluorescence siRNA screens?
- How do I download public image data into my history?
- How do I segment and label cell nuclei?
- How do I segment nucleoli (as the absence of DNA)?
- How do I combine nuclei and nucleoli into one segmentation mask?
- How do I extract the background of an image?
- How do I relate the nucleoli to their parent nucleus?
- How do I measure the image and object features?
- How do I measure the image quality?
Learning Objectives
- How to download images from a public image repository.
- How to segment cell nuclei using CellProfiler in Galaxy.
- How to segment cell nucleoli using CellProfiler in Galaxy.
- How to extract features for images, nuclei and nucleoli.
Licence: Creative Commons Attribution 4.0 International
Keywords: Imaging
Target audience: Students
Resource type: slides
Version: 2
Status: Active
Prerequisites:
- FAIR Bioimage Metadata
- Introduction to Galaxy Analyses
- REMBI - Recommended Metadata for Biological Images – metadata guidelines for bioimaging data
Learning objectives:
- How to download images from a public image repository.
- How to segment cell nuclei using CellProfiler in Galaxy.
- How to segment cell nucleoli using CellProfiler in Galaxy.
- How to extract features for images, nuclei and nucleoli.
Date modified: 2021-07-27
Date published: 2020-07-01
Scientific topics: Imaging
External resources:
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