Re-gen docs and prevent genning of internal functions

[Rnaught] / man / WP_unknown.Rd

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-% Generated by roxygen2: do not edit by hand
-% Please edit documentation in R/WP_unknown.R
-\name{WP_unknown}
-\alias{WP_unknown}
-\title{WP method background function WP_unknown}
-\usage{
-WP_unknown(NT, B = 100, shape.max = 10, scale.max = 10, tol = 0.999)
-}
-\arguments{
-\item{NT}{Vector of case counts.}
-
-\item{B}{Length of grid for shape and scale (grid search parameter).}
-
-\item{shape.max}{Maximum shape value (grid \code{search} parameter).}
-
-\item{scale.max}{Maximum scale value (grid \code{search} parameter).}
-
-\item{tol}{cutoff value for cumulative distribution function of the serial distribution (defaults to 0.999).}
-}
-\value{
-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.
-}
-\description{
-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.
-}
-\keyword{internal}