qiime2

Summary

• Module Name: qiime2

• Support Level: Secondary Support

• Software Access Level: Open Access

• Home Page: https://qiime2.org

Software Description

QIIME 2 is a powerful, extensible, and decentralized microbiome analysis package with a focus on data and analysis transparency. QIIME 2 enables researchers to start an analysis with raw DNA sequence data and finish with publication-quality figures and statistical results. QIIME 2 is a complete redesign and rewrite of the QIIME 1 microbiome analysis pipeline.

General Linux

To load this module for use in a Linux environment, you can run the command:

module load qiime2

Depending on where you are working, there may be more than one version of qiime2 available. To see which modules are available for loading you can run:

module avail qiime2

Slurm Example

#!/bin/bash
#SBATCH --job-name="rfm_RunQIIME2Test_job"
#SBATCH --ntasks=1
#SBATCH --ntasks-per-node=1
#SBATCH --output=rfm_RunQIIME2Test_job.out
#SBATCH --error=rfm_RunQIIME2Test_job.err
#SBATCH --time=0:10:0
#SBATCH -p msismall
module load qiime2/2019.1
qiime info