isOverlapping {ORFik}R Documentation

Find frame for each orf relative to cds

Description

Input of this function, is the output of the function [distToCds()]

Usage

isOverlapping(dists)

Arguments

dists

a vector of distances between ORF and cds

Value

a logical vector

References

doi: 10.1074/jbc.R116.733899

See Also

Other features: computeFeaturesCage, computeFeatures, disengagementScore, distToCds, distToTSS, entropy, floss, fpkm_calc, fpkm, fractionLength, initiationScore, insideOutsideORF, isInFrame, kozakSequenceScore, orfScore, rankOrder, ribosomeReleaseScore, ribosomeStallingScore, startRegionCoverage, startRegion, subsetCoverage, translationalEff

Examples

# simple example
isOverlapping(c(-3,-6,8,11,15))

# GRangesList example
grl <- GRangesList(tx1_1 = GRanges("1", IRanges(1,10), "+"))
fiveUTRs <- GRangesList(tx1 = GRanges("1", IRanges(1,20), "+"))
dist <- distToCds(grl, fiveUTRs)
isOverlapping <- isOverlapping(dist)

[Package ORFik version 1.4.0 Index]