\HeaderA{invokePhase-methods}{~~ Methods for Function invokePhase in Package `GGtools' ~~}{invokePhase.Rdash.methods}
\aliasA{invokePhase}{invokePhase-methods}{invokePhase}
\aliasA{invokePhase,phaseInput,chrnum,character,character,character,logical-method}{invokePhase-methods}{invokePhase,phaseInput,chrnum,character,character,character,logical.Rdash.method}
\aliasA{invokePhase,snp.matrix,chrnum,character,character,character,logical-method}{invokePhase-methods}{invokePhase,snp.matrix,chrnum,character,character,character,logical.Rdash.method}
\keyword{methods}{invokePhase-methods}
\begin{Description}\relax
~~ Methods for function \code{invokePhase} in Package `GGtools' ~~
\end{Description}
\begin{Section}{Methods}
\describe{
\item[x = "snp.matrix", cnum = "chrnum", parmstring = "character", globpname = "character", where2run = "character", doParse = "logical"] transform snp.matrix entity to phaseInput (uses tempfile()) and
invokes PHASE


\item[x = "phaseInput", cnum = "chrnum", parmstring = "character", globpname = "character", where2run = "character", doParse = "logical"] for prepared 'phaseInput' structure, invoke PHASE


}
\end{Section}
\begin{Examples}
\begin{ExampleCode}
## Not run: 
data(smtest)
invokePhase(smtest, chrnum(20), "", Sys.getenv("PHASE_LOC"),
   ".", TRUE)
## End(Not run)
\end{ExampleCode}
\end{Examples}

