The hardware and bandwidth for this mirror is donated by dogado GmbH, the Webhosting and Full Service-Cloud Provider. Check out our Wordpress Tutorial.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]dogado.de.
vivaldi (Viral Variant Location and Diversity) is an R package for analyzing viral genomes using next generation DNA sequencing.
The standard input is a vcf file.
install.packages("vivaldi")To get a bug fix or to use a feature from the development version, you can install the development version of vivaldi from GitHub.
# install.packages("devtools")
devtools::install_github("GreshamLab/vivaldi")Authors: Marrisa Knoll, Katherine Johnson, Megan Hockman, Eric Borenstein, Mohammed Khalfan, Elodie Ghedin, David Gresham
Email: dg107@nyu.edu
If you use vivaldi in published research, please cite:
Roder, A. E., et al. “Optimized Quantification of Intrahost Viral Diversity in SARS-CoV-2 and Influenza Virus Sequence Data.” bioRxiv (2022): 2021-05 URL https://www.biorxiv.org/content/10.1101/2021.05.05.442873v2
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.