Here is my code
slidingwindowplotATGC = function(windowsize, inputseq)
{
starts = seq(1, length(inputseq)-windowsize, by = windowsize)
n = length(starts)
chunkGs = numeric(n)
chunkAs = numeric(n)
chunkTs = numeric(n)
chunkCs = numeric(n)
for (i in 1:n) {
chunk = windowsize[starts[i]:(starts[i]+9999)]
chunkG = sum("g" == chunk)/length(chunk)
chunkA = sum("a" == chunk)/length(chunk)
chunkT = sum("t" == chunk)/length(chunk)
chunkC = sum("c" == chunk)/length(chunk)
chunkGs[i] = chunkG
chunkAs[i] = chunkA
chunkTs[i] = chunkT
chunkCs[i] = chunkC
}
plot(starts,chunkGs,type="b",ylim=c(min(min(chunkAs),min(chunkTs),min(chunkCs),min(chunkGs)),max(max(chunkAs),max(chunkTs),max(chunkCs),max(chunkGs))),col
= "red")
points(starts,chunkTs,col = "blue")
points(starts,chunkAs,col = "green")
points(starts,chunkCs)
}
Im getting the following error message,
Error in seq.default(1, length(inputseq) - windowsize, by = windowsize)
:
wrong sign in 'by' argument
which I never got before when running codes of this sort, infact I re ran
old code that worked perfectly before, except this time Im getting this
error message which doesn't seem to make any sense at all! I need help with
this before I go completely insane... Maybe Im just bad at this program, but
it seems to me that it has a mind of its own... I was also getting an error
message before regarding the ylim function, stating that it needed to be a
finite value, which is what I was giving it? HELP!!!
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