plotSpliceDGE {edgeR} | R Documentation

## Differential splicing plot

### Description

Plot relative log-fold changes by exons for the specified gene and highlight the significantly spliced exons.

### Usage

    plotSpliceDGE(lrt, geneid=NULL, genecolname=NULL, rank=1L, FDR=0.05)

### Arguments

`lrt` | `DGELRT` object produced by `diffSpliceDGE`.
`geneid` | character string, ID of the gene to plot.
`genecolname` | column name of `lrt$genes` containing gene IDs. Defaults to `lrt$genecolname`.
`rank` | integer, if `geneid=NULL` then this ranked gene will be plotted.
`FDR` | numeric, mark exons with false discovery rate less than this cutoff.

### Details

Plot relative log2-fold-changes by exon for the specified gene. The relative logFC is the difference between the exon's logFC and the overall logFC for the gene, as computed by `diffSpliceDGE`. The significantly spliced individual exons are highlighted as red dots. The size of the red dots are weighted by its significance.

### Value

A plot is created on the current graphics device.

### Author(s)

Yunshun Chen, Yifang Hu and Gordon Smyth

### See Also

`diffSpliceDGE`, `topSpliceDGE`.

[Package edgeR version 3.20.9 Index]