\HeaderA{gwSnpScreenResult-class}{Class "gwSnpScreenResult" -- containers for
genome-wide and chromosome-wide snp screen statistics}{gwSnpScreenResult.Rdash.class}
\aliasA{cwSnpScreenResult-class}{gwSnpScreenResult-class}{cwSnpScreenResult.Rdash.class}
\aliasA{getAbsSnpLocs}{gwSnpScreenResult-class}{getAbsSnpLocs}
\aliasA{getAbsSnpLocs,cwSnpScreenResult-method}{gwSnpScreenResult-class}{getAbsSnpLocs,cwSnpScreenResult.Rdash.method}
\aliasA{multiGwSnpScreenResult-class}{gwSnpScreenResult-class}{multiGwSnpScreenResult.Rdash.class}
\aliasA{plot,cwSnpScreenResult,ANY-method}{gwSnpScreenResult-class}{plot,cwSnpScreenResult,ANY.Rdash.method}
\aliasA{plot,cwSnpScreenResult-method}{gwSnpScreenResult-class}{plot,cwSnpScreenResult.Rdash.method}
\aliasA{plot,gwSnpScreenResult,ANY-method}{gwSnpScreenResult-class}{plot,gwSnpScreenResult,ANY.Rdash.method}
\aliasA{plot,gwSnpScreenResult-method}{gwSnpScreenResult-class}{plot,gwSnpScreenResult.Rdash.method}
\aliasA{show,gwSnpScreenResult-method}{gwSnpScreenResult-class}{show,gwSnpScreenResult.Rdash.method}
\aliasA{show,multiGwSnpScreenResult-method}{gwSnpScreenResult-class}{show,multiGwSnpScreenResult.Rdash.method}
\aliasA{[,gwSnpScreenResult,ANY,ANY-method}{gwSnpScreenResult-class}{[,gwSnpScreenResult,ANY,ANY.Rdash.method}
\aliasA{[,gwSnpScreenResult-method}{gwSnpScreenResult-class}{[,gwSnpScreenResult.Rdash.method}
\keyword{classes}{gwSnpScreenResult-class}
\begin{Description}\relax
Class "gwSnpScreenResult" -- containers for
genome-wide and chromosome-wide snp screen statistics
\end{Description}
\begin{Section}{Objects from the Class}
Objects can be created by calls of the form \code{new("gwSnpScreenResult", ...)}.
Mild extensions to 'list'.
\end{Section}
\begin{Section}{Slots}
\describe{
\item[\code{.Data}:] Object of class \code{"list"} list of
data.frames or matrices of test results 
\item[\code{gene}:] Object of class \code{"character"} gene name 
\item[\code{psid}:] Object of class \code{"character"} probe identifier 
\item[\code{annotation}:] Object of class \code{"character"} -- propagated
from smlSet 
\item[\code{snpLocExtRef}:] Object of class \code{"character"}, full pathname
of external store for snp locations relevant to the smlSet instance from
which gwSnpScreenResult was computed.
}
\end{Section}
\begin{Section}{Extends}
Class \code{"\LinkA{list}{list.Rdash.class}"}, from data part.
Class \code{"\LinkA{vector}{vector.Rdash.class}"}, by class "list", distance 2.
Class \code{"\LinkA{AssayData}{AssayData}"}, by class "list", distance 2.
\end{Section}
\begin{Section}{Methods}
\describe{
\item[plot] \code{signature(x = "gwSnpScreenResult", y = "ANY")}: 
plots minus log p values of association tests along chromosomal
coordinates
\item[show] \code{signature(object = "gwSnpScreenResult")}: brief report 
\item[[] \code{signature(object = "gwSnpScreenResult")}: restricts
chromosomes represented 
}
\end{Section}
\begin{Author}\relax
VJ Carey <stvjc@channing.harvard.edu>
\end{Author}
\begin{Examples}
\begin{ExampleCode}
showClass("gwSnpScreenResult")
data(hmceuB36.2021)
objects("package:GGBase")
x = gwSnpScreen(genesym("CPNE1"), hmceuB36.2021, chrnum(20))
x
\end{ExampleCode}
\end{Examples}

