\name{readPed}
\alias{readPed}
\title{Import pedigree file from standard pedigree file format}
\description{ 
Import pedigree file from standard pedigree file format.
}
\usage{
readPed (
        filename,
        columns=c("family", "pid", "father", "mother",
                  "sex", "affected"),
        quiet=FALSE
        )
}
\arguments{
  \item{filename}{File containing genotype data}
  \item{columns}{column names for sample info}
  \item{quiet}{indicates if intermediate output should be printed}
}
\details{
}
\value{
  A list with five elements: \code{ped}, \code{columns}, \code{markerNames}, \code{Position}, and \code{fileName}. \code{ped} is a pedigree data frame whose first 6 columns are family (pedigree id), pid (patient id), father (father id), mother (mother id), sex, affected (affection status). The remaining columns are pairs of marker alleles. Each row corresponds to an individual; \code{columns} are the names of the first 5 (or 6) columns of ped file. It should be either equal to  c("family","pid","father","mother","sex","affected") or equal to c("family","pid","father","mother","sex"); \code{founderOnly} indicates if using only founder info; \code{markerNames} is a vector of marker names; \code{Position} is a vector of marker positions; \code{fileName} is the pedigree file name.
}
\author{
Weiliang Qiu \email{stwxq@channing.harvard.edu}, 
Ross Lazarus \email{ross.lazarus@channing.harvard.edu}, 
Gregory Warnes \email{warnes@bst.rochester.edu},
Nitin Jain \email{nitin.jain@pfizer.com}
}
\note{
}
\seealso{\code{\link{read.table}}, etc}
\examples{
}
\keyword{misc}