Single-Cell Neutrophil Flux Analysis

About the Project

This repository contains code that utilizes single-cell RNASeq data to generate neutrophil metabolic flux profiles from Flux Balance Analysis.

Programming languages used in this analysis

• MATLAB version R2020b Update 4
• Python version 3.8.6
• R version 4.03

Getting Started

To re-perform the entire analysis, you should run the scripts in the following order:

1. python/magic.ipynb
2. matlab/immune_scCOBRA_models.mlx
3. matlab/immune_scDRSA.mlx
4. r/fba_umap.Rmd
5. r/dra.Rmd

Contributing

Contributions to make this analysis better, more robust, and easier to follow are greatly appreciated. Here are the steps we ask of you:

1. Fork the project
2. Create a new branch
3. Make your changes
4. Commit your changes
5. Push to the branch
6. Open a pull request

License

Distributed under the GNU License. See LICENSE for more information.

Contact

For questions regarding the code deposited in this repository, please reach out to Scott Campit via email at: scampit [at] umich [dot] edu or via Twitter at @secampit.