Introduction

The Metagenomic Sequence Simulator (MeSS) is a Snakemake pipeline, implemented using Snaketool, for simulating illumina, Oxford Nanopore (ONT) and Pacific Bioscience (PacBio) shotgun metagenomic samples.

• Set up in few minutes

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  Install mess with mamba and get started within minutes

  Getting started

• Streamlined pipeline

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  Easily download genomes and simulate reads in a single command

  Step-by-step guide

• Multi-sequencing technologies

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  Simulate sequencing runs for both long and short reads

  Tutorials

• Fast and scalable

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  MeSS can generate complex communities in a few minutes

  Benchmarks

Overview

MeSS takes as input NCBI taxa or local genome assemblies to generate either long (PacBio or ONT) or short (illumina) reads. In addition to reads, MeSS optionally generates bam alignment files and taxonomic profiles in bioboxes format.

Installation

mamba create -n mess mess

Usage