Tutorials

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

1. Downloading a dataset of single cell CellProfiler profiles.

2. Processing the profiles using PyCytominer. This includes the following steps:

   1. Data initialization

   2. Single cell aggregation to create well-level profiles

   3. Addition of experiment metadata to the well-level profiles

   4. Profile normalization

   5. Feature selection

   6. Forming consensus signatures

3. Evaluating the profile quality using cytominer-eval.