asTX {ORFik}R Documentation

Map genomic to transcript coordinates by reference

Description

Similar to GenomicFeatures' pmapToTranscripts, but in this version the grl ranges are compared to reference ranges with same name, not by index. And it has a security fix.

Usage

asTX(grl, reference)

Arguments

grl

a GRangesList of ranges within the reference, grl must have column called names that gives grouping for result

reference

a GrangesList of ranges that include and are bigger or equal to grl ig. cds is grl and gene can be reference

Value

a GRangesList in transcript coordinates

See Also

Other ExtendGenomicRanges: coveragePerTiling, overlapsToCoverage, reduceKeepAttr, tile1, txSeqsFromFa, windowPerGroup


[Package ORFik version 1.4.0 Index]