From 222a2bb14a2e70ca8984880824bc6aa9188722c1 Mon Sep 17 00:00:00 2001 From: LN Anderson <23365969+lnanderson@users.noreply.github.com> Date: Wed, 1 Mar 2023 12:27:21 -0800 Subject: [PATCH 1/2] Update README.md Updates include changes to the "README" to include recent journal article and software citations (including Zenodo DOI banner) listed under the created "Citation Guidance" section. --- README.md | 14 +++++++------- 1 file changed, 7 insertions(+), 7 deletions(-) diff --git a/README.md b/README.md index 4856aa1..f08dd44 100644 --- a/README.md +++ b/README.md @@ -1,5 +1,7 @@ # Snekmer: A scalable pipeline for protein sequence fingerprinting using amino acid recoding (AAR) +# [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.7662597.svg)](https://doi.org/10.5281/zenodo.7662597) + [![CI](https://github.com/PNNL-CompBio/Snekmer/actions/workflows/action.yml/badge.svg)](https://github.com/PNNL-CompBio/Snekmer/actions) [![Documentation Status](https://readthedocs.org/projects/snekmer/badge/?version=latest)](https://snekmer.readthedocs.io/en/latest/?badge=latest) [![Snakemake](https://img.shields.io/badge/snakemake-=7.0.0-brightgreen.svg?style=flat)](https://snakemake.readthedocs.io) @@ -37,15 +39,13 @@ the [official documentation](https://snekmer.readthedocs.io). To run the demonstration example, see [resources/tutorial/demo_example](https://github.com/PNNL-CompBio/Snekmer/tree/main/resources/tutorial/demo_example). -## Acknowledgments -Snekmer is written and maintained by the development team: +Snekmer was written and is maintained by the following PNNL development team: Christine Chang, Jeremy Jacobson, Abby Jerger, Bill Nelson, and Jason McDermott. + +## Citation Guidance -- Christine Chang (PNNL) -- Jeremy Jacobson (PNNL) -- Abby Jerger (PNNL) -- Bill Nelson (PNNL) -- Jason McDermott (PNNL) +1. McDermott, Jason E., Chang, Christine H., Jerger, Abby, Nelson, William B., & Jacobson, Jeremy R. (2023). Snekmer: A scalable pipeline for protein sequence fingerprinting using amino acid recoding (AAR) (v1.0.3). Zenodo. [https://doi.org/10.5281/zenodo.7662597](https://doi.org/10.5281/zenodo.7662597) +2. Christine H Chang, William C Nelson, Abby Jerger, Aaron T Wright, Robert G Egbert, Jason E McDermott, Snekmer: a scalable pipeline for protein sequence fingerprinting based on amino acid recoding, Bioinformatics Advances, Volume 3, Issue 1, 2023, vbad005, [https://doi.org/10.1093/bioadv/vbad005](https://doi.org/10.1093/bioadv/vbad005). ## License From def47da303efad3d5394881aa90a1b37ca51c877 Mon Sep 17 00:00:00 2001 From: Christine Chang <46230556+christinehc@users.noreply.github.com> Date: Wed, 1 Mar 2023 13:02:11 -0800 Subject: [PATCH 2/2] skip ci: format badges --- README.md | 3 +-- 1 file changed, 1 insertion(+), 2 deletions(-) diff --git a/README.md b/README.md index f08dd44..9589280 100644 --- a/README.md +++ b/README.md @@ -1,7 +1,6 @@ # Snekmer: A scalable pipeline for protein sequence fingerprinting using amino acid recoding (AAR) -# [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.7662597.svg)](https://doi.org/10.5281/zenodo.7662597) - +[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.7662597.svg)](https://doi.org/10.5281/zenodo.7662597) [![CI](https://github.com/PNNL-CompBio/Snekmer/actions/workflows/action.yml/badge.svg)](https://github.com/PNNL-CompBio/Snekmer/actions) [![Documentation Status](https://readthedocs.org/projects/snekmer/badge/?version=latest)](https://snekmer.readthedocs.io/en/latest/?badge=latest) [![Snakemake](https://img.shields.io/badge/snakemake-=7.0.0-brightgreen.svg?style=flat)](https://snakemake.readthedocs.io)