CPRD-Rhian-Infection-Scripts

R scripts for running analysis to compare risk factors for Covid-19, influenza, and pneumonia, in people with diabetes (currently unpublished manuscript)

Datasets

CPRD Aurum primary care records

Hospital Episode Statistics (HES)

Office for National Statistics (ONS) mortality data

Scripts

Cohorts:

1. Building cohorts:

   2020 Covid-19 cohort (index date- 01/02/2020)

   2016 influenza and pneumonia cohorts (index date - 01/09/2016)

2. Adding outcomes:

   Covid-19 hospitalisation (HES) and mortality (ONS)

   Influenza hospitalisation (HES) and mortality (ONS)

   Pneumonia hospitalisation (HES) and mortality (ONS)

Figures and Tables:

3. Main:

   Table 1 - Table of clinical and sociodemographic baseline characteristics

   Figure 1 - Forest plot of clinical and sociodemographic risk factor associations for hospitalisation in type 2 diabetes

   Figure 2 - Plot of the association of continuous HbA1c with hospitalisation, overall and by age and sex, in type 2 diabetes

   Figure 3 - Plot of the association of continuous BMI with hospitalisation, overall and by age and sex, in type 2 diabetes

4. Supplementary