coveragePerTiling {ORFik} | R Documentation |
It tiles each GRangesList group, and finds hits per position
coveragePerTiling(grl, reads, is.sorted = FALSE, keep.names = TRUE)
grl |
a |
reads |
a GAlignment or GRanges object of RiboSeq, RnaSeq etc |
is.sorted |
logical (F), is grl sorted. |
keep.names |
logical (T), keep names or not. |
a Rle, one list per group with # of hits per position.
Other ExtendGenomicRanges: asTX
,
overlapsToCoverage
,
pmapFromTranscriptF
,
reduceKeepAttr
, tile1
,
txSeqsFromFa
, windowPerGroup
ORF <- GRanges(seqnames = "1", ranges = IRanges(start = c(1, 10, 20), end = c(5, 15, 25)), strand = "+") grl <- GRangesList(tx1_1 = ORF) RFP <- GRanges("1", IRanges(25, 25), "+") coveragePerTiling(grl, RFP)