microorganisms.groups: Data Set with 534 Microorganisms In Species Groups

In AMR: Antimicrobial Resistance Data Analysis

Data Set with 534 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 534 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()

Download Our Reference Data

All reference data sets in the AMR package - including information on microorganisms, antimicrobials, and clinical breakpoints - are freely available for download in multiple formats: R, MS Excel, Apache Feather, Apache Parquet, SPSS, and Stata.

For maximum compatibility, we also provide machine-readable, tab-separated plain text files suitable for use in any software, including laboratory information systems.

Visit our website for direct download links, or explore the actual files in 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", ]

AMR documentation built on June 8, 2025, 10:17 a.m.