About systemPipe Project

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.

Availability

All the packages are freely available for all common operating systems from Bioconductor{blk}.

• systemPipeR: Bioconductor{blk} and Github{blk}

• systemPipeShiny: Bioconductor{blk} and Github{blk}

• systemPipeWorkflow: Github{blk}

Acknowledgement

This project is funded by NSF award ABI-1661152{blk}.