This repo contains the code and configuration of our paper Trends and clinical characteristics of COVID-19 vaccine recipients: a federated analysis of 57.9 million patients’ primary care records in situ using OpenSAFELY.
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- This differs from our weekly coverage report (repo) in that it runs in both EMIS and TPP backends and utilises the official specification for JCVI priority groups.
- You may also be interested in our work on vaccines being recorded as declined (preprint / repo).
- If you are interested in how we defined our variables, take a look at the study definition; this is written in python, but non-programmers should be able to understand what is going on there
- All codelists used in defining varibables are available on OpenCodelists. For this we used the national COVID-19 Vaccination Uptake Reporting Specification developed by PRIMIS.
- The charts and tables that are in our preprint paper are available here. We have made .csv files available, with the data behind the tables and charts for inspection, further analysis and re-use by anyone as long as OpenSAFELY.org is credited and/or linked to.
In released_outputs/combined/, you'll find:
cumulative_coverage/all/[key]/all_[key]_by_wave.csv: cumulative coverage for whole population, stratified by priority groupcumulative_coverage/wave_[n]/[key]/wave_[n]_[key]_by_[col].csv: cumulative coverage for one priority group, stratified by demographic or clinical grouptables/all_[key].csv: coverage for whole population at latest date, stratified by priority grouptables/wave_[n]_[key].csv: coverage for one priority group at latest date, stratified by demographic or clinical groupcharts/all_[key].png: chart of cumulative coverage for whole population, stratified by priority groupcharts/wave_[n]_[key].csv: chart of cumulative coverage for one priority group, stratified by demographic or clinical groupreports/all_[key].html: report containing charts and table for whole populationreports/wave_[n]_[key].html: report containing charts and table for one priority group
The OpenSAFELY framework is a secure analytics platform for electronic health records research in the NHS.
Instead of requesting access for slices of patient data and transporting them elsewhere for analysis, the framework supports developing analytics against dummy data, and then running against the real data within the same infrastructure that the data is stored. Read more at OpenSAFELY.org.