From 7b7729694363515007193d1c3e29e9b76271abb3 Mon Sep 17 00:00:00 2001
From: Johannes Ranke <jranke@uni-bremen.de>
Date: Sat, 26 Oct 2019 20:50:09 +0200
Subject: parms and confint methods

The confint method can do profile likelihood based confidence intervals!
---
 man/confint.mkinfit.Rd | 56 ++++++++++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 56 insertions(+)
 create mode 100644 man/confint.mkinfit.Rd

(limited to 'man/confint.mkinfit.Rd')

diff --git a/man/confint.mkinfit.Rd b/man/confint.mkinfit.Rd
new file mode 100644
index 00000000..94f55d14
--- /dev/null
+++ b/man/confint.mkinfit.Rd
@@ -0,0 +1,56 @@
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/confint.mkinfit.R
+\name{confint.mkinfit}
+\alias{confint.mkinfit}
+\title{Confidence intervals for parameters of mkinfit objects}
+\usage{
+\method{confint}{mkinfit}(object, parm, level = 0.95, alpha = 1 -
+  level, method = c("profile", "quadratic"), transformed = TRUE,
+  backtransform = TRUE, distribution = c("student_t", "normal"),
+  quiet = FALSE, ...)
+}
+\arguments{
+\item{object}{An \code{\link{mkinfit}} object}
+
+\item{parm}{A vector of names of the parameters which are to be given
+confidence intervals. If missing, all parameters are considered.}
+
+\item{level}{The confidence level required}
+
+\item{alpha}{The allowed error probability, overrides 'level' if specified.}
+
+\item{method}{The 'profile' method searches the parameter space for the
+cutoff of the confidence intervals by means of a likelihood ratio test.
+The 'quadratic' method approximates the likelihood function at the
+optimised parameters using the second term of the Taylor expansion, using
+a second derivative (hessian) contained in the object.}
+
+\item{transformed}{If the quadratic approximation is used, should it be
+applied to the likelihood based on the transformed parameters?}
+
+\item{backtransform}{If we approximate the likelihood in terms of the
+transformed parameters, should we backtransform the parameters with
+their confidence intervals?}
+
+\item{distribution}{For the quadratic approximation, should we use
+the student t distribution or assume normal distribution for
+the parameter estimate}
+
+\item{quiet}{Should we suppress messages?}
+}
+\value{
+A matrix with columns giving lower and upper confidence limits for
+  each parameter.
+}
+\description{
+Confidence intervals for parameters of mkinfit objects
+}
+\examples{
+f <- mkinfit("SFO", FOCUS_2006_C, quiet = TRUE)
+confint(f, method = "quadratic")
+confint(f, method = "profile")
+}
+\references{
+Pawitan Y (2013) In all likelihood - Statistical modelling and
+  inference using likelihood. Clarendon Press, Oxford.
+}
-- 
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