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sprokopec edited this page Jul 7, 2021 · 30 revisions

PughLab pipeline suite

Installation and Dependencies

This is a collection of pipelines to be used for NGS (both DNA and RNA) analyses, from alignment to variant calling.

Start by creating a clone of the repository:

cd /path/to/some/directory
git clone https://github.com/pughlab/pipeline-suite/

Additionally, the report generation portion of this tool requires installation of the BPG plotting package for R: https://CRAN.R-project.org/package=BoutrosLab.plotting.general

Overview

Table of contents