The bbglab/deepCSA documentation is split into the following pages:
- Usage
- An overview of how the pipeline works and how to run it.
- File formatting
- An overview of the specific formats required for each of the custom mandatory or optional files.
- Output
- An overview of the different results produced by the pipeline and how to interpret them.
- Tools
- An overview of the explanation of the tools used in deepCSA and the rationale behind some of the decisions or computations.