Created example toy dataset for testing package functions and updated documentation
Removed GitHub README page from package bundle
Minor changes to fix NOTES and WARNINGS thrown by CRAN:
URLs which have been moved since the initial documentation was written have been fixed.
Examples have been added to the documentation for each package function.
A vignette including the most relevant example workflows has been added.
biomarker_qc() now corrects for sample degradation time
on a log scale instead of a linear scale to model exponential decay.
This mainly impacts histidine concentrations, whose new post-QC values
have Pearson correlation of 0.974 with those assuming linear decay,
while all other biomarkers have Pearson correlation > 0.99.extract_biomarker_qc_flags() no longer relies on list
of hard coded field IDs it expects not to be present due to no data in
UK Biobank, making code more robust to differences between UK Biobank
data releases.remove_technical_variation() now gains a
skip.biomarker.qc.flags argument that allows you to skip
the collation and curation of biomarker QC flags when removing technical
variation from the data
extract_biomarker_qc_flags() and
remove_technical_variation() should now be more robust to
potential changes made by UK Biobank in extracted data formats,
particularly for fields that are empty/contain no data in the showcase
(or which gain data between showcase updates).