Covmuller

Covmuller is an R-package designed for analysis of SARS-CoV-2 sequencing metadata deposited on GISAID.

Features

Covmuller currently supports the following features:

Read and preprocess metadata file downloaded from GISAID: Vignette
Plot variant prevalence: Vignette
Fit multinomial models to variant prevalence data:
- India
- USA
- Canada
- UK
- Australia
- SouthAfrica
Estimate totals prevalence of variants by projecting case prevalence data on multinomila fits:

Name		Name	Last commit message	Last commit date
Latest commit History 355 Commits
.github		.github
R		R
data		data
docs		docs
man		man
vignettes		vignettes
.Rbuildignore		.Rbuildignore
.gitignore		.gitignore
CITATION.cff		CITATION.cff
DESCRIPTION		DESCRIPTION
LICENSE		LICENSE
NAMESPACE		NAMESPACE
NEWS.md		NEWS.md
README.md		README.md
_pkgdown.yml		_pkgdown.yml
build_site.sh		build_site.sh
covmuller.Rproj		covmuller.Rproj
index.md		index.md
replace_date.sh		replace_date.sh