txSeqsFromFa {ORFik}R Documentation

Get transcript sequence from a GrangesList and a faFile or BSgenome

Description

A small safety wrapper around extractTranscriptSeqs

Usage

txSeqsFromFa(grl, faFile, is.sorted = FALSE)

Arguments

grl

a GRangesList object

faFile

FaFile, BSgenome or fasta/index file path used to find the transcripts

is.sorted

a speedup, if you know the ranges are sorted

Value

a DNAStringSet of the transcript sequences

See Also

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

[Package ORFik version 1.4.1 Index]