Nothing
######################################################################
#
# markerlrt.R
#
# copyright (c) 2010-2019, Karl W Broman
# last modified Dec, 2019
# first written Jul, 2010
#
# This program is free software; you can redistribute it and/or
# modify it under the terms of the GNU General Public License,
# version 3, as published by the Free Software Foundation.
#
# This program is distributed in the hope that it will be useful,
# but without any warranty; without even the implied warranty of
# merchantability or fitness for a particular purpose. See the GNU
# General Public License, version 3, for more details.
#
# A copy of the GNU General Public License, version 3, is available
# at http://www.r-project.org/Licenses/GPL-3
#
# Part of the R/qtl package
# Contains: markerlrt
#
######################################################################
######################################################################
#
# markerlrt: General likelihood ratio test to assess linkage between
# all pairs of markers
#
######################################################################
markerlrt <-
function(cross)
{
if(!inherits(cross, "cross"))
stop("Input should have class \"cross\".")
Geno <- pull.geno(cross)
Geno[is.na(Geno)] <- 0
maxg <- max(as.numeric(Geno))
n.ind <- nrow(Geno)
n.mar <- ncol(Geno)
mar.names <- colnames(Geno)
z <- .C("R_markerlrt",
as.integer(n.ind), # number of individuals
as.integer(n.mar), # number of markers
as.integer(Geno),
as.integer(maxg), # maximum observed genotype
lod = as.double(rep(0,n.mar*n.mar)),
PACKAGE="qtl")
cross$rf <- matrix(z$lod,ncol=n.mar)
dimnames(cross$rf) <- list(mar.names,mar.names)
attr(cross$rf, "onlylod") <- TRUE
cross
}
# end of markerlrt.R
Any scripts or data that you put into this service are public.
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.