Convert the plpData in COO format into a sparse R matrix — toSparseM • PatientLevelPrediction

Converts the standard plpData to a sparse matrix

toSparseM(plpData, cohort = NULL, map = NULL)

Arguments

plpData: An object of type plpData with covariate in coo format - the patient level prediction data extracted from the CDM.
cohort: If specified the plpData is restricted to the rowIds in the cohort (otherwise plpData$labels is used)
map: A covariate map (telling us the column number for covariates)

Value

Returns a list, containing the data as a sparse matrix, the plpData covariateRef and a data.frame named map that tells us what covariate corresponds to each column This object is a list with the following components:

data: A sparse matrix with the rows corresponding to each person in the plpData and the columns corresponding to the covariates.
covariateRef: The plpData covariateRef.
map: A data.frame containing the data column ids and the corresponding covariateId from covariateRef.

Details

This function converts the covariate file from ffdf in COO format into a sparse matrix from the package Matrix

Examples

#TODO