enrichedMirTxPairs {scanMiRApp} | R Documentation |
Identifies pairs of miRNA and target transcripts that have an unexpectedly high number of sites.
enrichedMirTxPairs(m, minSites = 5, max.binom.p = 0.001)
m |
A GRanges of matches, as produced by |
minSites |
The minimum number of sites for a given miRNA-target pair to be considered. |
max.binom.p |
The maximum binomial p-value of miRNA-target pairs. |
A data.frame of top combinations, including number of sites and the log-transformed binomial p-value.
# we create a dummy scan (see `runFullScan`) library(scanMiR) seqs <- getRandomSeq(n=10) mirs <- c("TTGTATAA","AGCATTAA") m <- findSeedMatches(seqs,mirs,verbose=FALSE) # we look for enriched pairs res <- enrichedMirTxPairs(m, minSites=1, max.binom.p=1) res