psminer is an R package with functions that can read, summarize, plot, and manipulate data produced by the nextflow pipeline pathogensurveillance.

You can also install the development version for the newest features, bugs, and bug fixes in R as follows:

install.packages("devtools")
devtools::install_github("grunwaldlab/psminer")

# Fetch DOI to `bibtex` format
doi <- "https://doi.org/10.1002/cpbi.102"
bibtex_citation <- get_bibtex_from_doi(doi, format = "bibtex")

This work is subject to the MIT License.