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Meropenem Phenotype Data from EuSCAPE project

Source: R/data.R
kp_mero_euscape.Rd

Meropenem phenotype data for Klebsiella pneumoniae from EuSCAPE project, one sample per row, downloaded from the EBI AMR portal using download_ebi() and imported using import_pheno().

Usage

kp_mero_euscape

Format

kp_mero_euscape A data frame with 1,490 rows and 43 columns:

  • id: Sample identifier, imported from the BioSample column in the raw input.

  • drug: Antibiotic code, interpreted from Antibiotic using as.ab.

  • mic: Minimum inhibitory concentration, formatted using as.mic.

  • disk: Disk diffusion zone, formatted using as.disk.

  • method, platform, guideline: Test method and platform and interpretation guideline.

  • pheno_provided: S/I/R interpretation as provided in the raw input.

  • spp_pheno: Species identifier, interpreted from Scientific name using as.mo, used to interpret ecoff and pheno columns.

  • ...: Additional data columns from EBI AMR Portal

Source

EBI AMR Portal. See David et al. (2019) https://doi.org/10.1038/s41564-019-0492-8.