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#####################################################################
#
# pickMarkerSubset.R
#
# copyright (c) 2011-2013, Karl W Broman
# last modified Apr, 2013
# first written Nov, 2011
#
# 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
#
######################################################################
pickMarkerSubset <-
function(locations, min.distance, weights)
{
n.loc <- length(locations)
if(n.loc==1) return(names(locations)) # just one marker
if(missing(weights))
weights <- rep(1, n.loc)
else {
if(n.loc != length(weights))
stop("length(locations) != length(weights) [", n.loc, " != ", length(weights), "]")
}
if(is.null(names(locations)))
names(locations) <- 1:n.loc
if(any(diff(locations) < 0)) {
o <- order(locations)
weights <- weights[o]
locations <- locations[o]
warning("Markers are not in order; sorting them.")
}
z <- .C("R_pickMarkerSubset",
as.double(locations),
as.integer(n.loc),
as.double(weights),
as.double(min.distance),
path=as.integer(rep(0, n.loc)),
n.path=as.integer(0),
PACKAGE="qtl")
path <- rev(z$path[1:z$n.path]+1) # reverse and add 1
return(names(locations)[path])
}
# end of pickMarkerSubset.R
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