Novel Methods for Reproduction Number Estimation, Back-Calculation, and Forecasting


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Documentation for package ‘WhiteLabRt’ version 1.0.1

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WhiteLabRt-package The 'WhiteLabRt' package.
convert_to_linelist Convert Case Counts to a Line List
create_caseCounts Create a Case Counts Data Frame
create_linelist Create a Line List from Report and Onset Dates
out_list_demo Sample back-calculation output
plot.backnow Plot Estimates or Reproduction Numbers
plot.caseCounts Plot Case Counts Over Time
run_backnow Run Back Calculation and Estimate Reproduction Numbers
sample_cases Sample cases
sample_dates Sample dates
sample_location Sample location
sample_multi_site Sample multi site
sample_m_hier Sample hierachical model output
sample_onset_dates Sample onset dates
sample_report_dates Sample report dates
si Calculate a Serial Interval Distribution
spatialRt Run Spatial R(t) estimation and Estimate Reproduction Numbers
transfer_matrix Transfer matrix
WhiteLabRt The 'WhiteLabRt' package.