CGAT-sc documentation!

CGAT-sc is a collection of single cell pipelines that allow users to perform some of the standard workflows associated wit single cell analysis. This repository is still in development but the aim is to collate a series of single cell workflows that allow the

The workflow management systems that underpins all of our pipelines is `CGAT-core <>https://github.com/cgat-developers/cgat-core>`_. We demonstrate the functionality of CGAT-core using a simple RNA-seq pipeline in cgat-showcase. Therefore, if you are not familiar with how we build our workflows I suggest that you look at these two pipelines first.

Citation

Continued development, will most likely be cited as part of a scientific publication. Watch this space….

Support

  • Please refer to our FAQ section
  • For bugs and issues, please raise an issue on github
  • For contributions, please refer to our contributor section and github source code.

Selected publications using CGAT-sc

These publications will appear here. Watch this space as this is a new repository.