fungarium

An R package for enhancing the utility of fungarium collections and community science observations in ecological analyses of fungi.

Installing fungarium

install.packages("remotes") #install 'remotes' (if not already installed)
remotes::install_github("hjsimpso/fungarium@*release") #install the latest fungarium release
#to install the latest development version use:
remotes::install_github("hjsimpso/fungarium@main")

Highlights

• Update taxonomy of fungi and plants to currently accepted names.
• Clean and harmonize heterogeneous date formats.
• Clean and harmonize heterogeneous location names.
• Annotate fungal occurrence datasets with FUNGuild data.
• Mine substrate and habitat metadata for fungal traits.
• Assign occurrences to geographic grid cells and calculate abundances of different taxa.

Meta

• Please cite: Simpson, H., Schilling, J. 2021. Using aggregated field collection data and the novel R package FUNGARIUM to investigate fungal fire-association. Mycologia 113(4):842-855. DOI: 10.1080/00275514.2021.1884816
• This package is released with a Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.
• Please report any bugs.