25 lines
783 B
R
25 lines
783 B
R
theta = 10^-3
|
|
|
|
Fm_BASE = 392 - 2 * 101 # The mean insert size == 190
|
|
Fs = 44
|
|
|
|
meanDepth = 65
|
|
nReadsToPhase = 1
|
|
|
|
params = paste("meanDepth= ", meanDepth, ", nReadsToPhase= ", nReadsToPhase, ", theta= ", theta, ", Fm_BASE= ", Fm_BASE, ", Fs= ", Fs, sep="")
|
|
|
|
|
|
READ_LENGTHS = seq(from=30, to=1000, by=10)
|
|
NUM_READ_LENGTHS = length(READ_LENGTHS)
|
|
|
|
pPhaseReadLength = as.vector(matrix(data = -1, nrow = 1, ncol = NUM_READ_LENGTHS))
|
|
for (i in 1:NUM_READ_LENGTHS) {
|
|
Fm = Fm_BASE + 2 * READ_LENGTHS[i]
|
|
pPhaseReadLength[i] = pDirectlyPhaseHetPair(meanDepth, nReadsToPhase, READ_LENGTHS[i], theta, Fm, Fs)
|
|
}
|
|
scatter(READ_LENGTHS, pPhaseReadLength, "testReadLengths", xlab="Read length", ylab="Phaseability", main=params, type="b")
|
|
|
|
|
|
|
|
save(list = ls(all=TRUE), file = "testReadLengths.RData")
|