recompute_derived_biomarker_qc_flags: Aggregate QC Flags when recomputing all composite and derived...

In sritchie73/ukbnmr: Removal of Unwanted Technical Variation from UK Biobank NMR Metabolomics Biomarker Data

Aggregate QC Flags when recomputing all composite and derived biomarkers

Description

For the 61 composite biomarkers, 81 Nightingale biomarker ratios, and 76 extended biomarker ratios computed by recompute_derived_biomarkers(), aggregates the biomarker QC flags from the underlying biomarkers (see nmr_info).

Usage

recompute_derived_biomarker_qc_flags(x)

Arguments

x	data.frame containing NMR metabolomics data from UK Biobank. May either be raw field data output by ukbconv or data with column names corresponding to biomarkers listed in nmr_info.

Details

If your UK Biobank project only has access to a subset of biomarkers, then this function will only return the subset of ratios that can be computed from the biomarker data provided.

Biomarker QC Flags in the input data are also returned alongside those aggregated by this function for the computed biomarker ratios.

Value

a data.frame with QC flags aggregated for all computed biomarkers and ratios.

See Also

nmr_info for list of computed biomarker ratios and extract_biomarkers() for details on how raw data from ukbconv is processed.

Examples

ukb_data <- ukbnmr::test_data # Toy example dataset for testing package
biomarker_qc_flags <- recompute_derived_biomarker_qc_flags(ukb_data)

sritchie73/ukbnmr documentation built on Nov. 24, 2024, 8:51 p.m.