Keeps records that have the bare minimum fields needed for any analysis:
a patient identifier, a culture date, an organism name, and at least one
non-NA AST result. This is a looser filter than prep_filter_analysis_ready().
Usage
prep_filter_minimally_usable(
data,
patient_col = "patient_id",
culture_date_col = "culture_date",
organism_col = "organism_name",
ast_col = "ast_value_harmonized"
)Arguments
- data
Data frame after preprocessing.
- patient_col
Character. Patient ID column. Default "patient_id".
- culture_date_col
Character. Culture date column. Default "culture_date".
- organism_col
Character. Organism column. Default "organism_name".
- ast_col
Character. Harmonized AST column. Default "ast_value_harmonized".