1 | densityplot(ds, strt = NULL, nd = NULL, lab, parameters)
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ds |
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strt |
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nd |
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lab |
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parameters |
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 | ##---- Should be DIRECTLY executable !! ----
##-- ==> Define data, use random,
##-- or do help(data=index) for the standard data sets.
## The function is currently defined as
function (ds, strt = NULL, nd = NULL, lab, parameters)
{
if (is.null(strt) & is.null(nd)) {
strt <- 1
nd <- length(ds)
}
else if (is.null(strt)) {
strt <- 1
}
else if (is.null(nd)) {
nd <- length(ds)
}
yvalues <- vector()
for (o in strt:nd) {
fitxer <- getFile(ds, idx = o)
dl <- log(aroma.affymetrix::getData(fitxer, fields = "intensities",
indices = 1:nbrOfCells(fitxer))$intensities, base = 2)
ycoor <- ceiling(max(density(dl)$y))
yvalues <- c(yvalues, ycoor)
}
colors <- rainbow(nd - strt + 1)
fitxer <- getFile(ds, idx = strt)
dl <- log(aroma.affymetrix::getData(fitxer, fields = "intensities",
indices = 1:nbrOfCells(fitxer))$intensities, base = 2)
plot(density(dl), col = colors[1], main = paste("Samples",
strt, "to", nd), xlab = "log2(y)", ylim = c(0, max(yvalues)),
lty = strt, ylab = "")
for (e in (strt + 1):nd) {
fitxer <- getFile(ds, idx = e)
dl <- log(aroma.affymetrix::getData(fitxer, fields = "intensities",
indices = 1:nbrOfCells(fitxer))$intensities, base = 2)
lines(density(dl), col = colors[(e - strt) + 1], lty = e)
}
if (length(lab) < 15) {
legend("topright", legend = lab, cex = 0.6, col = colors[1:nd],
lty = strt:nd, lwd = 1.6)
}
else {
legend("topright", legend = lab, cex = parameters$ce,
col = colors[1:nd], lty = strt:nd, lwd = 1.6)
}
}
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