PartnerGene-class {chimeraviz} | R Documentation

## An S4 class to represent a gene partner in a fusion

### Description

The PartnerGene class represents one of the genes in a fusion event.

### Slots

`name`

  Character containing name of the gene.

`ensembl_id`

  Character containing ensembl id for the gene.

`chromosome`

  Character containing chromosome name.

`breakpoint`

  Numeric containing the fusion breakpoint.

`strand`

  Character containing gene strand.

`junction_sequence`

  Biostrings::DNAString containing the sequence right before/after the fusion breakpoint.

`transcripts`

  GenomicRanges::GRangesList containing three GenomicRanges::Granges() objects, one for each "transcript type". The transcript types are: 1) Transcripts where the fusion breakpoint hits an exon boundary, 2) transcripts where the fusion breakpoint is within an exon, 3) transcripts where the fusion breakpoint is within an intron.

[Package chimeraviz version 1.12.3 Index]