Clindamycin MIC data for 5914 Staphylococcus aureus isolates

Used to investigate genetic determinants of clindamycin resistance. Downloaded from NCBI and EBI.

Usage

pheno_CLI_public

pheno_CLI_public A data frame with 5914 rows and 34 columns:

id: Sample identifier, imported from the #BioSample column in the raw input.
drug: Antibiotic code, interpreted from Antibiotic using as.ab, used to interpret ecoff and pheno columns.
mic: Minimum inhibitory concentration, formatted using as.mic, used to interpret ecoff and pheno columns.
disk: Disk diffusion zone, formatted using as.disk, used to interpret ecoff and pheno columns.
pheno_eucast: S/I/R classification according to EUCAST, interpreted using as.sir.
ecoff: WT/NWT classification, interpreted using as.sir.
guideline: Interpretation guidelines used to interpret ecoff and pheno columns.
method: Test method, one of: "E-test', "Unknown', "agar dilution', "broth dilution', "disk diffusion'.
platform: Testing platform, one of "BD Phoenix', "Microscan', "Phoenix', "Sensititre', "Vitek'.
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.