microorganisms.groups: Data Set with 521 Microorganisms In Species Groups

In msberends/AMR: Antimicrobial Resistance Data Analysis

Data Set with 521 Microorganisms In Species Groups

Description

A data set containing species groups and microbiological complexes, which are used in the clinical breakpoints table.

Usage

microorganisms.groups

Format

A tibble with 521 observations and 4 variables:

• mo_group
  ID of the species group / microbiological complex

• mo
  ID of the microorganism belonging in the species group / microbiological complex

• mo_group_name
  Name of the species group / microbiological complex, as retrieved with mo_name()

• mo_name
  Name of the microorganism belonging in the species group / microbiological complex, as retrieved with mo_name()

Details

Like all data sets in this package, this data set is publicly available for download in the following formats: R, MS Excel, Apache Feather, Apache Parquet, SPSS, and Stata. Please visit our website for the download links. The actual files are of course available on our GitHub repository.

See Also

as.mo() microorganisms

Examples

microorganisms.groups

# these are all species in the Bacteroides fragilis group, as per WHONET:
microorganisms.groups[microorganisms.groups$mo_group == "B_BCTRD_FRGL-C", ]

msberends/AMR documentation built on March 5, 2025, 2:28 p.m.