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   1 % Generated by roxygen2: do not edit by hand
   2 % Please edit documentation in R/WP_unknown.R
   3 \name{WP_unknown}
   4 \alias{WP_unknown}
   5 \title{WP method background function WP_unknown}
   6 \usage{
   7 WP_unknown(NT, B = 100, shape.max = 10, scale.max = 10, tol = 0.999)
   8 }
   9 \arguments{
  10 \item{NT}{Vector of case counts.}
  11
  12 \item{B}{Length of grid for shape and scale (grid search parameter).}
  13
  14 \item{shape.max}{Maximum shape value (grid \code{search} parameter).}
  15
  16 \item{scale.max}{Maximum scale value (grid \code{search} parameter).}
  17
  18 \item{tol}{cutoff value for cumulative distribution function of the serial distribution (defaults to 0.999).}
  19 }
  20 \value{
  21 The function returns \code{Rhat}, the maximum likelihood estimator of R0, as well as the maximum
  22         likelihood estimator of the discretized serial distribution given by \code{p} (the probability mass
  23         function) and \code{range.max} (the distribution has support on the integers one to \code{range.max}).
  24         The function also returns \code{resLL} (all values of the log-likelihood) at \code{shape} (grid for
  25         shape parameter) and at \code{scale} (grid for scale parameter), as well as \code{resR0} (the full
  26         vector of maximum likelihood estimators), \code{JJ} (the locations for the likelihood for these), and
  27         \code{J0} (the location for the maximum likelihood estimator \code{Rhat}). If \code{JJ} and \code{J0}
  28         are not the same, this means that the maximum likelihood estimator is not unique.
  29 }
  30 \description{
  31 This is a background/internal function called by \code{WP}. It computes the maximum likelihood estimator
  32 of R0 assuming that the serial distribution is unknown but comes from a discretized gamma distribution.
  33 The function then implements a simple grid search algorithm to obtain the maximum likelihood estimator
  34 of R0 as well as the gamma parameters.
  35 }
  36 \keyword{internal}