codingJunctions: Select sequence junctions in which both the five-prime and...

In cancer-genomics/trellis: Somatic structural variant analysis

Select sequence junctions in which both the five-prime and three-prime genomic regions occur within a transcript

Description

For the 3-prime genomic region, the sequence junction must occur within a transcript (usually intronic). For the 5-prime sequence junction, the genomic region can either be within 5-kb upstream of the transcript (defined as the promoter) or within the transcript.

Usage

codingJunctions(jxns, build)

Arguments

jxns	a GRanges representation of the sequence junctions
build	a character-string

Examples

# TODO

cancer-genomics/trellis documentation built on Aug. 20, 2024, 5:48 p.m.