Estimation of R0 and Real-Time Reproduction Number from Epidemics

Documentation for package ‘R0’ version 1.2-10

R0-package	Estimation of R0 and Real-Time Reproduction Number from Epidemics
check.incid	Check incid in the input
est.GT	Find the best-fitting GT distribution for a series of serial interval
est.R0.AR	Estimate R0 from attack rate of an epidemic
est.R0.EG	Estimate R from exponential growth rate
est.R0.ML	Estimate the reproduction number by maximum likelihood
est.R0.SB	Estimate the time dependent reproduction number using a Bayesian approach
est.R0.TD	Estimate the time dependent reproduction number
estimate.R	Estimate R0 for one incidence dataset using several methods
generation.time	Generation Time distribution
Germany.1918	Germany.1918 exemple dataset
GT.chld.hsld	2009 A/H1N1 observed Generation Time distribution
H1N1.serial.interval	H1N1 serial interval sample
impute.incid	Optimiziation routine for incidence imputation
inspect.data	Inspect input data for common issues
plot.R0.S	Plot objects from sensitivity.analysis
plotfit	Generic S3 method to plot either "R0.R" and "R0.sR" objects
R0	Estimation of R0 and Real-Time Reproduction Number from Epidemics
sa.GT	Sensitivity analysis of reproduction ratio with varying GT distribution
sa.time	Sensitivity analysis of basic reproduction ratio to begin/end dates
sensitivity.analysis	Sensitivity analysis of basic reproduction ratio to begin/end dates
sim.epid	Epidemic outbreak simulation
sim.epid.indiv	Influenza-like illness simulation (individual-based model)
smooth.Rt	Smooth real-time reproduction number over larger time period