Introduction

Code to replicate analysis for the manuscript "A new surveillance landscape for seasonal influenza?: Comparing lab-confirmed influenza hospitalizations with other syndromic and surveillance data sources for the state of California"

Structure

• nhsn_correlations.Rmd: primary document to replicate analyses; sources scaled state and regional data from /data folder and writes results to /results folder
• /data: contains publicly available versioned data (NSSP, wastewater data), county/region crosswalk for the state of CA, county-level geoson data for map plotting, and scaled state and regional combined data sources for the analysis period
• /R: contains ccf_methods.R which has a function that calculates cross correlation coefficients for Pearson, Kendall, and Spearman correlations (not just Pearson as is default in R)
• /results: contains results from the analysis including results for Table 1 and Table S1