GenPipes User Guide

GenPipes is an open source, next generation sequencing framework written in Python. Developed at the Canadian Centre for Computational Genomics (C3G), GenPipes facilitates writing and execution of multi-step genomics processing pipelines on HPC clusters. It offers 12 validated pipelines that include CoV, Tumor Pair, RNA, ChIP, DNA, Methylation and Hi-C sequencing.

Getting started

New users can quickly get started by referring to the Quick Start Guide. The seasoned users can directly jump into the Pipeline Reference Guide.

The latest GenPipes Version is 4.5.0. Refer to the release notes for more information regarding what is new, which pipelines were updated and what issues are fixed in this release.

To contribute, see Getting involved.

Happy genomic analysis with GenPipes!