Brieflow is an extensible computational pipeline for high-throughput analysis of optical pooled screening data.
This repo is a Github template with the configuration notebooks/files and execution scripts for running an OPS screen analysis. Brieflow contains the source code for running an OPS screen analysis.
| Screen | Repository | Description | Brieflow Version |
|---|---|---|---|
| Denali | cheeseman-lab/denali-analysis | Original screen that drove Brieflow development | 1.0 |
| Aconcagua | cheeseman-lab/aconcagua-analysis | Re-analysis of Funk et al. 2022 | 1.0 |
Examples use this template. More examples coming soon. Please contact us if you have used Brieflow in your own analysis!
We strongly suggest that Brieflow Analysis is set up with the companion Brieflow repository.
Full details on setup, installation, test data, usage, module details, and contribution guides:
https://brieflow.readthedocs.io
We welcome community contributions to Brieflow! Feel free to:
- Give Brieflow a star to boost its visibility!
- Join Brieflow's Discord to chat with the developers.
- File a GitHub issue to share comments and issues. We aim to keep brieflow-related issues in the main Brieflow repository.
- Clone the repository, create a new branch, and submit a pull request.
Make sure to review the Brieflow development guide to understand how to best contribute!