Title: COVID-19 Genotyping Tool (CGT) - v0.2.2
Type Software Hassaan Maan, Hamza Mbareche, Amogelang R. Raphenya, Arinjay Banerjee, Jalees A. Nasir, Robert A. Kozak, Natalie Knox, Samira Mubareka, Andrew G. McArthur, Bo Wang (2020): COVID-19 Genotyping Tool (CGT) - v0.2.2. Zenodo. Software. https://zenodo.org/record/3832306
Links
- Item record in Zenodo
- Digital object URL
Summary
The Covid-19 Genotyping Tool (CGT) is an R-Shiny based web application that allows researchers to upload fasta sequences of Covid-19 viral genomes and compare with public sequence data available on GISAID. Genomic distance is visualized using manifold projection and network analysis, and genotype information with respective to high-prevalence SNPs is determined.
Release 0.2.2 of the Covid-19 Genotyping Tool. Updates include:
Weekly update to include 2000+ new filtered GISAID sequences Masking homoplasic sites prior to DNA distance calculation Full core utilization for user-input data processing Minor UI fixesMore information
- DOI: 10.5281/zenodo.3832306
Subjects
- COVID-19, SARS-CoV-2, Visualization, Genomics, Application, R-Shiny, Interactive
Dates
- Publication date: 2020
- Issued: May 18, 2020
Rights
- https://opensource.org/licenses/GPL-3.0 GNU General Public License v3.0 only
- info:eu-repo/semantics/openAccess Open Access
Format
electronic resource
Relateditems
| Description | Item type | Relationship | Uri |
|---|---|---|---|
| IsSupplementTo | https://github.com/hsmaan/CovidGenotyper/tree/v0.2.2 | ||
| IsVersionOf | https://doi.org/10.5281/zenodo.3832305 | ||
| IsPartOf | https://zenodo.org/communities/covid-19 | ||
| IsPartOf | https://zenodo.org/communities/zenodo |