fpkm_calc {ORFik}R Documentation

Create normalizations of counts

Description

A helper for [fpkm()] Normally use function [fpkm()], if you want unusual normalization , you can use this. Short for: Fragments per kilobase of transcript per million fragments Normally used in Translations efficiency calculations

Usage

fpkm_calc(counts, lengthSize, librarySize)

Arguments

counts

a list, # of read hits per group

lengthSize

a list of lengths per group

librarySize

a numeric of size 1, the # of reads in library

Value

a numeric vector

References

doi: 10.1038/nbt.1621

See Also

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


[Package ORFik version 1.4.0 Index]