estErrProbMethodOfMoments {ppiStats} | R Documentation |
Estimate false positive and false negative error probabilities by method moments.
estErrProbMethodOfMoments(nint, nrec, nunr, ntot)
nint |
Integer vector. True number of interactions. Typically, the function is called for a range of these, returning all possible solutions for that range. |
nrec |
Integer scalar. Observed number of reciprocated edges. |
nunr |
Integer scalar. Observed number of unreciprocated edges. |
ntot |
Integer scalar. Number of proteins which were tested twice (e.g. both as viable bait and as viable prey). |
The model is described in the vignette Stochastic and systematic errors in PPI data, by looking at unreciprocated in- or out-edges by W. Huber, T. Chiang and R. Gentleman.
Matrix with 5 columns nint
(a copy of the input argument),
pfp1
, pfn1
, pfp2
and pfn2
, and as many
rows as the length of nint
.
Wolfgang Huber http://www.ebi.ac.uk/huber
est = estErrProbMethodOfMoments(nint=seq(8000, 40000, by=100), nrec=9722, nunr=15856, ntot=2000) if(interactive()) { plot(est[, c("pfp2", "pfn2")], type="l", col="blue", lwd=2, xlab=expression(p[FP]), ylab=expression(p[FN])) abline(h=0, v=0, lty=2) }