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# Bios2cor is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 2 of the License, or
# any later version.
#
# 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 for more details.
#
# See the GNU General Public License at:
# http://www.gnu.org/licenses/
#
scores.boxplot <- function(corr_matrix_list, name_list, filepathroot, elite=25, high=275){
if (is.null(filepathroot)) {
filename <- paste(tempdir(), "/BOXPLOT.png", sep = "")
}else{
filename <- paste(filepathroot, "_BOXPLOT.png", sep = "")
}
corr_tab <- sapply(corr_matrix_list, function(x){as.vector(x)})
nb_objects <- length(corr_matrix_list)
message(paste("Boxplot elements :", nb_objects))
png(filename, width = 600, height = 400, units = "px", pointsize = 12)
oldpar <- par(no.readonly = TRUE)
on.exit(par(oldpar))
boxplot(corr_tab, names = name_list, xlab="Z-score", cex.lab=1.5, cex.axis=0.90, col = "grey", outcol = "grey", horizontal=T, las=1)
for(i in 1:nb_objects){
matrix <- corr_matrix_list[i]
X <- upper.tri(matrix,diag=FALSE)
increasing_corr <- sort(corr_tab[,i])
decreasing_corr <- sort(corr_tab[,i], decreasing= TRUE)
top_high <- decreasing_corr[1:high*2]
points(top_high, rep(i,length(top_high)), pch=16, col="dodgerblue")
top_elite <- decreasing_corr[1:elite*2]
points(top_elite, rep(i,length(top_elite)), pch=16, col="blue")
bottom_high <- increasing_corr[1:high*2]
points(bottom_high, rep(i,length(bottom_high)), pch=16, col="pink")
bottom_elite <- increasing_corr[1:elite*2]
points(bottom_elite, rep(i,length(bottom_elite)), pch=16, col="red")
}
#Draw a line at position v
abline(v=4, lty=2)
#Box with special line width
box(lwd = 3)
dev.off()
}
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