Incidence, Prevalence and Survival over time of different cancers - COVID study

Introduction

This study is focussing on determining the incidence, prevalence and survival for specific cancers from 2000 to 2022. We will focus on the following cancers:

• Breast
• Colorectal
• Lung
• Liver
• Stomach
• Head/neck
• Prostate
• Pancreas
• Oesophagus

Running the analysis

1. Download this entire repository (you can download as a zip folder using Code -> Download ZIP, or you can use GitHub Desktop).
2. Open the project EHDENCancerIncidencePrevalence.Rproj in RStudio (when inside the project, you will see its name on the top-right of your RStudio session)
3. Open and work though the CodeToRun.R file which should be the only file that you need to interact with. Run the lines in the file, adding your database specific information and so on (see comments within the file for instructions). The last line of this file will run the study (source(here("RunStudy.R")).
4. After running you should then have a zip folder with results to share in your output folder.

Cohort Diagnostics containing concept sets for each cancer: https://dpa-pde-oxford.shinyapps.io/CancerExtrapolationDiagnostics/

Results: https://dpa-pde-oxford.shinyapps.io/CancerIncSurvCovid/