systemPipe Workflow Environment
systemPipe (SP) is a generic toolkit for designing and running reproducible data analysis workflows. The environment consists of three major modules implemented as R/Bioconductor packages.
systemPipeR (SPR) provides core functionalities for defining workflows, interacting with command-line software, and executing both R and/or command-line software, as well as generating publication-quality analysis reports.
systemPipeShiny (SPS) integrates a graphical user interface for managing workflows and visualizing results interactively.
systemPipeWorkflow (SPW) offers a collection of pre-configured workflow templates.
All the packages are freely available for all common operating systems from Bioconductor.
This project is funded by NSF award ABI-1661152.