data550-finalproject

Final project for DATA 550

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Using CDC data on RSV (https://data.cdc.gov/Public-Health-Surveillance/Rates-of-Laboratory-Confirmed-RSV-COVID-19-and-Flu/kvib-3txy/about_data) and Flu (https://gis.cdc.gov/grasp/fluview/fluhosprates.html) compare weekly rates of RSV and Influenza, by race and age.

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Code Description

code/01_data_cleaning.R

• creates cleaned data from files found in data/raw/
• saves data as CSV files found in data/ folder
• run make data to run this script

code/02_regression_analysis.R

• runs regression analysis of race on cumulative rate from cleaned data files in data/ folder
• outputs regression summary tables to .rds files in output/ folder
• run make regression to run this script

code/03_render_report.R

• renders FluRSV_Report.Rmd
• run make FluRSV_Report.html to run this script

FluRSV_Report.Rmd

• reads in cleaned data files found in data/raw/
• creates summary tables by race and age as well as epi curves for RSV and Flu
• prints regression summary table for race on cumulative rate.
• called by code/03_render_report.R

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How to synchronize packages:

1. Run Rscript renv/activate.R.
2. Run make install to restore package versions.

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How to build Docker image:

Run make resp_image

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How to create FluRSV_Report.html report:

Run make docker-resp-report

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