This function validates LAB assay data based on a set of criteria, including folder structure, metadata, and file contents. It supports optional functionalities like creating a PDF report and DMAQC validation (data only available at the BIC).
validate_lab(
input_results_folder,
cas,
return_n_issues = FALSE,
full_report = FALSE,
f_proof = FALSE,
printPDF = FALSE,
out_qc_folder = NULL,
dmaqc_shipping_info = NULL,
dmaqc_phase2validate = FALSE,
validate_uniprot = FALSE,
verbose = TRUE
)A string representing the path to the folder containing LAB assay results to be validated.
A character string indicating the CAS number.
Logical; if TRUE, the function returns the number of
detected issues.
Logical; if TRUE, generates a full report of the
validation process.
Logical; if TRUE, generates proof plots for data validation.
Logical; if TRUE and f_proof is TRUE, saves the plots
to a PDF file. If so, provide the desired path to output
the PDF file in the argument out_qc_folder.
Optional; a string specifying the path to the folder
where output PDF should be saved (only if printPDF = TRUE).
Default: current working directory.
(character) File path to the DMAQC file. Only the BIC can use this argument.
(character) Provide phase to validate. This argument
is not required since it should be extracted from the input folder or from the
new required file metadata_phase.txt. Please ignore. However, if this argument is provided,
it will take priority and this will be the phase.
Logical; if TRUE, validates against the UniProt
database.
Logical; if TRUE, prints detailed messages during validation.
Depending on the settings, this function may return the number of issues found, generate reports or plots, or simply perform the validation without returning anything.
if (FALSE) { # \dontrun{
validate_lab("/path/to/results", cas = "broad_rg", return_n_issues = TRUE)
} # }