empiricprescribing

Code for Shiny app for Empiric Prescribing recommendations

app.R

Gives the Shiny app code for generating out Empiric Prescribing app for the Wellcome Data Re-Use AMR prize. This is currently found at: https://gwenknight.shinyapps.io/empiric_prescribing

data_manip.R

This gives the basic aggregation code that was used to take the ATLAS data to syndromic level resistance.

data_manip_all_datasets.R

This gives the basic aggregation code for the ATLAS data and other three datasets to syndromic level resistance and combines them into the final file needed for the Shiny app.

all_datasets.csv

This is the final output that is used by the Shiny app.

Other .csv files

These provide the basic underling data that we found to support the above analysis.