upstreamOfPerGroup {ORFik}R Documentation

Get rest of objects upstream (exclusive)

Description

Per group get the part upstream of position upstreamOfPerGroup(tx, startSites(cds, asGR = TRUE)) will return the 5' utrs per transcript, usually used for interesting parts of the transcripts.

Usage

upstreamOfPerGroup(tx, upstreamOf, allowOutside = TRUE)

Arguments

tx

a GRangesList, usually of Transcripts to be changed

upstreamOf

a vector of integers, for each group in tx, where is the the base after the new stop point of last valid exon.

allowOutside

a logical (T), can upstreamOf extend outside range of tx, can set boundary as a false hit, so beware.

Value

a GRangesList of upstream part

See Also

Other GRanges: assignFirstExonsStartSite, assignLastExonsStopSite, downstreamFromPerGroup, downstreamOfPerGroup, upstreamFromPerGroup


[Package ORFik version 1.4.0 Index]