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SCoPE2

Single-Cell ProtEomics by Mass Spectrometry

GitHub

Requirements

This application has been tested on R >= 3.5.0, OSX 10.14 / Windows 7/8/10. R can be downloaded from the main R Project page or downloaded with the RStudio Application. All modules are maintained for MaxQuant >= 1.6.0.16.

Running

Each thematic part of the SCoPE2_analysis.R script is bounded by an R "region". These can be minimized when not in use. You will need to create "figs","dat", and "code" sub-directories.

To execute the ladder_experiment_analysis.R script you will have to change the path to the ladder experiment evidence file provided on MassIVE, as well as install packages ggpubr and reshape2 from CRAN. The ladder_experiment_design.csv is not necessary for script execution.


About the project

The manuscript is freely available on bioRxiv: Specht et al., 2019 and at Genome Biology Specht et al., 2021.

Contact the authors by email: nslavov{at}northeastern.edu.

License

The SCoPE2 code is distributed by an MIT license.

Contributing

Please feel free to contribute to this project by opening an issue or pull request.


Help!

For any bugs, questions, or feature requests, please use the GitHub issue system to contact the developers.

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