\name{as.UniquePairs}
\alias{as.UniquePairs}
\title{Create a UniquePairs object by converting a single IdMap or a list of Id Maps into...}
\usage{as.UniquePairs(idMapData, secondaryIDs, keepMissing=FALSE,
    verbose=FALSE)}
\description{Create a UniquePairs object by converting a single IdMap or a list of Id Maps into 
a single or list of unique pairs data structures optionally intersecting
the secondary ID set with an external secondary ID set if farther data 
size reduction is necessary}
\details{The alternative representation of an IdMap suitable for performing
the correlation related processing. Contains a data frame with two columns, 
each row of which represents a unique pair <primary ID, secondary ID>
where primary ID corresponds to the primaryIDs of an ID Map and secondary ID 
corresponds to a single ID from a list of comma separated secondary IDs within
the corresponding ID Map. The column names correspond to the primary/secondary 
keys of an Id Map ('acc' and 'probeset' for example)}
\value{UniquePairs object}
\keyword{internal}
\author{Roger Day, Alex Lisovich}
\arguments{\item{idMapData}{an IdMap object or a list of IdMap objects to be converted into UniquePairs}
\item{secondaryIDs}{optional secondary ID list on which the resulting UniquePairs is intersected. Default is NULL (not present).}
\item{keepMissing}{logical indicating if the rows with empty secondary IDs should removed 
from the resulting object. Default is FALSE (keep such rows)}
\item{verbose}{if TRUE enables diagnostic messages}}