This function creates a directory structure and metadata files for a cBioPortal study.
It generates clinical patient data, mutation data, and associated metadata files.
The function creates a directory named "cbioportal_study" and writes the following files:
Usage
create_metadata(
patient_id,
output_dir = paste0(tempdir(), "/cbioportal_study")
)
Arguments
- patient_id
A vector of patient IDs to be included in the clinical data.
- output_dir
The directory where the metadata files will be created. Default is "/cbioportal_study" in the `tempdir()`.
Details
- data_clinical_patient.txt: Contains clinical patient data.
- meta_clinical_patient.txt: Metadata for clinical patient data.
- meta_study.txt: Metadata for the study.
- data_mutations.txt: Contains mutation data.
- meta_mutations.txt: Metadata for mutation data.
Examples
# create_metadata(patient_id, output_dir)