fuse-methods: Fuse transcripts

In cancer-genomics/trellis: Somatic structural variant analysis

Fuse transcripts

Description

If there are only two transcripts to join, the GRangesList object has length one. In general, the GRangesList object returned has length R x C where R is the number of transcripts from the gene 5-prime of the fusion and C is the number of transcripts from the gene 3' of the fusion.

Usage

fuse(object, nms)

## S4 method for signature 'TranscriptsFusion'
fuse(object, nms)

## S4 method for signature 'ClippedTranscripts'
fuse(object, nms)

Arguments

object	a Transcripts-derived class
nms	name of transcript (character-string)

Value

A GRangesList

See Also

link{clip}

Examples

  data(rear_cds)
  clipped <- clip(rear_cds)
  ## The fused transcript contains exon ranks 2-9 of NM_001288715 and exon
  ## ranks 10-57 of NM_007118 
  fused <- fuse(clipped)

cancer-genomics/trellis documentation built on Feb. 2, 2023, 7:04 p.m.