XPRESSpipe

About

XPRESSpipe is a part of the XPRESSyourself suite of sequencing tools. XPRESSpipe is an automated, efficient, and flexible pipeline for end-to-end processing of ribosome profiling data. XPRESSpipe is currently capable of handling single-end (SE), paired-end (PE), and ribosome profiling data. Other analyses can be performed by XPRESSplot. Please read the relevant documentation for more information.

If you have limited or no computational experience, please see our Beginner’s Guide.

Please refer to the Overview page for more details regarding functionality.

Table of contents

• Overview
• Quickstart
• Beginner’s Guide
• Installation
• General Usage
• Curating References
• Single-End RNA-seq Pipeline
• Paired-End RNA-seq Pipeline
• Ribosome Profiling Pipeline
• Quality Control
• Analysis
• Read Pre-Processing
• Alignment
• Read Quantification
• Normalize
• Other Features
• FAQs
• Updates

License

XPRESSpipe and the XPRESSyourself suite is developed and maintained by Jordan Berg in the Rutter Lab @ the University of Utah, along with other collaborators. We welcome pull requests if you would like to contribute to the project.

XPRESSpipe is perpetually open source under a GNU General Public License (v3.0).

Questions?

If you have questions, requests, or bugs to report, please use the XPRESSpipe issues forum.