distToTSS {ORFik} | R Documentation |
Matching is done by transcript names. This is applicable practically to the upstream (fiveUTRs) ORFs. If ORF is not within specified search space in fiveUTRs, this function will crash.
distToTSS(ORFs, fiveUTRs)
ORFs |
orfs as |
fiveUTRs |
5' leaders as |
an integer vector, 1 means on TSS, 2 means second base of Tx.
doi: 10.1074/jbc.R116.733899
Other features: computeFeaturesCage
,
computeFeatures
,
disengagementScore
,
distToCds
, entropy
,
floss
, fpkm_calc
,
fpkm
, fractionLength
,
initiationScore
,
insideOutsideORF
, isInFrame
,
isOverlapping
,
kozakSequenceScore
, orfScore
,
rankOrder
,
ribosomeReleaseScore
,
ribosomeStallingScore
,
subsetCoverage
,
translationalEff
grl <- GRangesList(tx1_1 = GRanges("1", IRanges(5, 10), "+")) fiveUTRs <- GRangesList(tx1 = GRanges("1", IRanges(2, 20), "+")) distToTSS(grl, fiveUTRs)