This project focuses on creating an nf-core pipeline for processing data for cell painting analysis using CellProfiler, cytotable, pycytominer, and other tools.
Goals
- Fill out the basic documentation for the planned pipeline in the nf-core/cellpainting repo.
- For people who are familiar with cell painting and would like to focus on the documentation.
- Add appropriate test data to nf-core/datasets for the pipeline.
- For people who are familiar with cell painting and can identify data for use in unit tests.
- Create a module(s) for CellProfiler processing steps of the workflow including:
- Z projection
- QC
- illumination correction
- analysis
- For people who are familiar Nextflow and nf-core module development.
We welcome contributors of all experience levels.
