From f794170b8b2541bd41bec62f7981097e6eaadfe9 Mon Sep 17 00:00:00 2001 From: Thomas Krannich Date: Mon, 16 Sep 2024 16:10:14 +0200 Subject: [PATCH] Update README.md new citation guideline --- README.md | 24 +++++++++++------------- 1 file changed, 11 insertions(+), 13 deletions(-) diff --git a/README.md b/README.md index 22d7668..18caf76 100644 --- a/README.md +++ b/README.md @@ -102,20 +102,18 @@ Please file issues, bug reports and questions to the [issues](https://github.com ## Citation: -We have a [preprint](https://www.biorxiv.org/content/10.1101/2024.06.21.600013v1) available for CIEVaD. -For the time being, if you use CIEVaD please cite +We have a [manuscript](https://www.mdpi.com/1999-4915/16/9/1444) available for CIEVaD. +If you use CIEVaD please cite ``` -@article {Krannich2024.06.21.600013, - author = {Krannich, Thomas and Ternovoj, Dimitri and Paraskevopoulou, Sofia and Fuchs, Stephan}, - title = {CIEVaD: a lightweight workflow collection for rapid and on demand deployment of end-to-end testing of genomic variant detection}, - elocation-id = {2024.06.21.600013}, - year = {2024}, - doi = {10.1101/2024.06.21.600013}, - publisher = {Cold Spring Harbor Laboratory}, - abstract = {The identification of genomic variants has become a routine task in the thriving age of genome sequencing. Particularly small genomic variants of single or few nucleotides are routinely investigated for their impact on an organism{\textquoteright}s phenotype. Hence, precise and robust detection of the variants{\textquoteright} exact genomic location and change in nucleotide composition is vital in many biological applications. Although a plethora of methods exist for the many key steps of variant detection, thoroughly testing the detection process and evaluating its results is still a cumbersome procedure. In this work, we present a collection of trivial to apply and highly modifiable workflows to facilitate the generation of synthetic test data as well as to evaluate the accordance of a user-provided set of variants with the test data. Availability: The workflows are implemented in Nextflow and are freely available and open-source at https://github.com/rki-mf1/cievad under the GPL-3.0 license.Competing Interest StatementThe authors have declared no competing interest.}, - URL = {https://www.biorxiv.org/content/early/2024/06/21/2024.06.21.600013}, - eprint = {https://www.biorxiv.org/content/early/2024/06/21/2024.06.21.600013.full.pdf}, - journal = {bioRxiv} +@article{krannich2024cievad, + title={CIEVaD: A Lightweight Workflow Collection for the Rapid and On-Demand Deployment of End-to-End Testing for Genomic Variant Detection}, + author={Krannich, Thomas and Ternovoj, Dmitrii and Paraskevopoulou, Sofia and Fuchs, Stephan}, + journal={Viruses}, + volume={16}, + number={9}, + pages={1444}, + year={2024}, + doi={10.3390/v16091444} } ```