install_bioinformatics_packages.md

Instructions for installing bioinformatics packages.

Author: Olga Botvinnik
Email: [email protected]
Date: 2016-06-09

This document sets up computers with no bioinformatics tools to be ready for running alignments and counting reads. This assumes you have the Anaconda package manager installed.

• 1. Add R and Bioconda channels

$ conda config --add channels r
$ conda config --add channels bioconda

• 2. Install Bioinformatics packages

$ conda install --yes STAR samtools subread bedtools cutadapt fastqc