Currently the README.md file does not mention any of the scripts in the colony_mask_features folder. If we want users to discover and use those, we need to write instructions in the top-level README.
There is a README at EMT_data_analysis/colony_mask_features/README.md that the top-level README can reference. In addition, I expect users would benefit from context on how the colony_mask_features scripts fit in the context of this repo & the paper.