CellProfiler Video Tutorials
Visit our YouTube playlist for video tutorials on CellProfiler, CellProfiler Analyst, segmentation strategies, how to construct pipelines, and much more.
CellProfiler Written Tutorials
Our introduction to automated image analysis principles and practicalities is published as an educational article at PLoS.
The NIH has published a introductory chapter of “best practices” for image-based high-content screening (in which CellProfiler is mentioned) as part of the Assay Guidance Manual, and our group has published a more advanced follow-up chapter on image analysis methods.
Using CellProfiler for Quantitative Image Analysis [PPT]
Using the Input modules in CellProfiler 2.1:
- Images [PDF]
- Metadata [PDF]
- NamesAndTypes [PDF]
- Groups [PDF]
- Loading image stacks and movies [PDF]
- Identifying, measuring, and classifying yeast colonies [PDF] (relevant example pipeline)
- Identifying and measuring cells: Cytoplasm-nucleus translocation assay [PDF] (relevant example pipeline)
We also post guided exercises as part of our educational outreach effort.