Production version of the PRISM MTS pipeline. For use with Luminex output or clue.io datasets.
Each module is organized into its own sub-directory with associated Docker images on Docker Hub. README files for each module are contained within their respective directories.
In order to run the Docker images (no R installation or local scripts required), install Docker following the instructions here.
To run individual scripts or make modifications install R. RStudio, an IDE for R, is not required but is recommended for running and viewing R code.
The MTS pipeline is run on AWS and therefore most modules are designed with AWS in mind. Some modules are also specifically for handling and moving around files on AWS. Therefore, while the Docker images are useful tools, it may be easier in some cases to run the R scripts individually when running locally.