Package: ukbnmr 2.2.2

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

A suite of utilities for working with the UK Biobank <https://www.ukbiobank.ac.uk/> Nuclear Magnetic Resonance spectroscopy (NMR) metabolomics data <https://biobank.ndph.ox.ac.uk/showcase/label.cgi?id=220>. Includes functions for extracting biomarkers from decoded UK Biobank field data, removing unwanted technical variation from biomarker concentrations, computing an extended set of lipid, fatty acid, and cholesterol fractions, and for re-deriving composite biomarkers and ratios after adjusting data for unwanted biological variation. For further details on methods see Ritchie SC et al. Sci Data (2023) <doi:10.1038/s41597-023-01949-y>.

Authors:Scott C Ritchie [aut, cre]

ukbnmr_2.2.2.tar.gz
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ukbnmr_2.2.2.tgz(r-4.4-any)ukbnmr_2.2.2.tgz(r-4.3-any)
ukbnmr_2.2.2.tar.gz(r-4.5-noble)ukbnmr_2.2.2.tar.gz(r-4.4-noble)
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ukbnmr.pdf |ukbnmr.html✨
ukbnmr/json (API)
NEWS

# Install 'ukbnmr' in R:
install.packages('ukbnmr', repos = c('https://sritchie73.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/sritchie73/ukbnmr/issues

Datasets:
  • nmr_info - Nightingale biomarker information
  • sample_qc_info - Nightingale biomarker sample processing information
  • test_data - Data for testing package functions

On CRAN:

5.43 score 27 stars 6 scripts 235 downloads 10 exports 4 dependencies

Last updated 9 months agofrom:fd720928c0. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 31 2024
R-4.5-winOKOct 31 2024
R-4.5-linuxOKOct 31 2024
R-4.4-winOKOct 31 2024
R-4.4-macOKOct 31 2024
R-4.3-winOKOct 31 2024
R-4.3-macOKOct 31 2024

Exports:compute_extended_ratio_qc_flagscompute_extended_ratioscompute_nightingale_ratio_qc_flagscompute_nightingale_ratiosextract_biomarker_qc_flagsextract_biomarkersextract_sample_qc_flagsrecompute_derived_biomarker_qc_flagsrecompute_derived_biomarkersremove_technical_variation

Dependencies:bitbit64data.tableMASS

Guide to using the ukbnmr package

Rendered fromukbnmr.Rmdusingknitr::rmarkdownon Oct 31 2024.

Last update: 2023-08-23
Started: 2022-12-21