Load the organism summary table — get_organism

Loads a table that lists the organisms in the NCBI pathogens project and the number of isolates associated with each

Usage

get_organism_table(
  browser = "firefox",
  url = "https://www.ncbi.nlm.nih.gov/pathogens/organisms/"
)

browser: 'string designating the browser to use, default is firefox'
url: 'url to extract the table from. default is https://www.ncbi.nlm.nih.gov/pathogens/organisms/

a dataframe containing the organism information

Requires the RSelenium and janitor packages. Rselenium was a bit of a pain for me to get working with firefox in my linux env

'get_organisms_table()'
#> [1] "get_organisms_table()"