diff --git a/CITATION.cff b/CITATION.cff index e67e63c..c76e842 100644 --- a/CITATION.cff +++ b/CITATION.cff @@ -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" diff --git a/README.md b/README.md index 514418d..efb1ec0 100644 --- a/README.md +++ b/README.md @@ -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. @@ -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 \ No newline at end of file diff --git a/mess/mess.CITATION b/mess/mess.CITATION index 45913b2..75a53f9 100644 --- a/mess/mess.CITATION +++ b/mess/mess.CITATION @@ -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: