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Add paper citation #38

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15 changes: 14 additions & 1 deletion CITATION.cff
Original file line number Diff line number Diff line change
Expand Up @@ -38,4 +38,17 @@ url: "https://metagenlab.github.io/MeSS/"
abstract: >-
Snakemake pipeline for simulating shotgun metagenomic samples
license: MIT
version: 0.10.0
preferred-citation:
type: article
authors:
- given-names: Farid
family-names: Chaabane
- given-names: Trestan
family-names: Pillonel
- given-names: Claire
family-names: Bertelli
doi: "10.1093/bioinformatics/btae760"
journal: "Bioinformatics"
title: "MeSS and assembly_finder: A toolkit for in silico metagenomic sample generation"
year: 2024
url: "https://doi.org/10.1093/bioinformatics/btae760"
7 changes: 7 additions & 0 deletions README.md
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Expand Up @@ -11,6 +11,7 @@
[![docker](https://github.com/metagenlab/MeSS/actions/workflows/docker-publish.yml/badge.svg)](https://github.com/metagenlab/MeSS/actions/workflows/docker-publish.yml)

[![DOI](https://zenodo.org/badge/195021481.svg)](https://zenodo.org/badge/latestdoi/195021481)
[![paper](https://img.shields.io/badge/paper-Bioinformatics-%23167da4)](https://doi.org/10.1093/bioinformatics/btae760)

The Metagenomic Sequence Simulator (MeSS) is a [Snakemake](https://github.com/snakemake/snakemake) pipeline, implemented using [Snaketool](https://github.com/beardymcjohnface/Snaketool), for simulating illumina, Oxford Nanopore (ONT) and Pacific Bioscience (PacBio) shotgun metagenomic samples.

Expand Down Expand Up @@ -251,3 +252,9 @@ mess run -i phage.tsv --rotate 3 -o mess_out/circular
All command-line options at described [here](https://metagenlab.github.io/MeSS/commands/)

![`mess -h`](docs/images/mess-help.svg)

## Citation

Please consider citing `MeSS` if you use it in your work.

> Farid Chaabane, Trestan Pillonel, Claire Bertelli, MeSS and assembly_finder: A toolkit for in silico metagenomic sample generation, Bioinformatics, 2024;, btae760, https://doi.org/10.1093/bioinformatics/btae760
2 changes: 1 addition & 1 deletion mess/mess.CITATION
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@@ -1,5 +1,5 @@
Please cite MeSS and assembly_finder in your paper using this article:

https://doi.org/10.1093/bioinformatics/btae760

Please consider also citing these dependencies:
ART:
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