Image Analysis of Biological Data using CellProfiler

After the session you will be able to built your own CellProfiler pipeline, including:

  • Image data import
  • Object segmentation (e.g. detect nuclei in an image) using the modules "IdentifyPrimaryObjects" and "IdentifySecondaryObjects"
  • Object feature measurements (e.g. measure size, shape and intensity of cells)
  • Measurements export to a spreadsheet
  • Creating and saving quality control images
Tool(s) used for training
Author(s)
Anna Klemm
Date
Prerequisites

To be able to follow the course you need to know basic image analysis:

  • concept of “images are a matrix of numbers”
  • handling of multi-channel images
  • bit-depth
  • segmentation by applying an global threshold
  • “analyze particles” (connected component analysis)
License
cc-by
Expected duration
1hours