patrickdeelen / covid19_prs_time

covid19_prs_time (later we can put the title here)

Quality control

script:

PGS calculation

Polygenic scores (PGSs) are calculated using the scripts in ./scripts/pgs-calculations. The scripts are described here.

Relation PGSs and traits

Longitudinal models

We selected ## questions for longitudinal models. The data was converted to long format and other preprocessing needed for the mixed models. After fitting the models the plots are made using this script: ####

Validation models

Correlation with nation-wide statistics

A number of publicly available data sources reflecting the development of the pandemic were selected for correlation with subjective quality of life. After preprocessing of the PGSs and traits, ./scripts/nationWideCorrelations.R is used for creating figures and correlations.

Comparison of included samples and invited samples for polygenic scores

A comparison was done betwen samples that were invited in the studies and samples that were included for the polygenic scores. After preprocessing of the PGSs and traits, ./scripts/pgsParticipationComparison.R is used for creating figures and performing significance tests.

Visualizing distributions of questions

After preprocesssing of the PGSs and traits, ./scripts/plotOutcomeDistributions.R can be used to plot the distributions of each of the outcome variables for which we attempted to fit a time interaction.