nmode's Git Repositories - Rnaught/blob - man/WP_unknown.Rd

   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 search parameter)}
  15
  16 \item{scale.max}{maximum scale value (grid 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 likelihood estimator of the discretized serial distribution given by \code{p} (the probability mass function) and \code{range.max} (the distribution has support on the integers one to \code{range.max}).  The function also returns \code{resLL} (all values of the log-likelihood) at \code{shape} (grid for shape parameter) and at \code{scale} (grid for scale parameter), as well as \code{resR0} (the full vector of maximum likelihood estimators), \code{JJ} (the locations for the likelihood for these), and \code{J0} (the location for the maximum likelihood estimator \code{Rhat}).  If \code{JJ} and \code{J0} are not the same, this means that the maximum likelihood estimator is not unique.
  22 }
  23 \description{
  24 This is a background/internal function called by \code{WP}.  It computes the maximum likelihood estimator of R0 assuming that the serial distribution is unknown but comes from a discretized gamma distribution.  The function then implements a simple grid search algorithm to obtain the maximum likelihood estimator of R0 as well as the gamma parameters.
  25 }