Tutorials

This tutorial shows how to run a image-based profiling pipeline using pycytominer. Using IPython notebooks, it walks through the following steps:

• Downloading a dataset of single cell CellProfiler profiles.
• Processing the profiles using PyCytominer. This includes the following steps:
• Data initialization
• Single cell aggregation to create well-level profiles
• Addition of experiment metadata to the well-level profiles
• Profile normalization
• Feature selection
• Forming consensus signatures
• Evaluating the profile quality using cytominer-eval.