read.cross.gary {qtl}R Documentation

Read data for a QTL experiment in Gary Churchill's format

Description

Data for a QTL experiment is read from a set of files and converted into an object of class cross.

Usage

read.cross.gary(dir,genfile,mnamesfile,chridfile,phefile,pnamesfile,mapfile)

Arguments

dir Character string specifying the directory containing the input files.
genfile File containing genotype data.
mnamesfile File containing a list of marker names.
chridfile File containing a list of chromosome numbers, one for each marker.
phefile File containing phenotype data.
pnamesfile File containing a list of phenotype names.
mapfile File containing map locations for the markers. There may be extraneous records in this file.

Value

An object of class cross. See read.cross for details.

Author(s)

Karl W Broman, kbroman@jhsph.edu
http://biosun01.biostat.jhsph.edu/~kbroman/software/qtl.html

See Also

read.cross, read.cross.karl, read.cross.mm, read.cross.csv

Examples

cross <- read.cross("gary",dir="../Data",genfile="geno.dat",
      mnamesfile="mnames.txt",chridfile="chrid.dat",phefile="pheno.dat",
      pnamesfile="pnames.txt",mapfile="markerpos.txt")
[Package Contents]