visualize {ASpediaFI} | R Documentation

## AS event and pathway visualization

### Description

Visualize AS event or pathway. If an AS event node is given, the function modified from the `plotTranscripts` function in the `maser` package is used to visualize the event. If a pathway node is given, a subnetwork pertaining to the pathway is visualized.

### Usage

    visualize(object, node, zoom = NULL, n = NULL)

### Arguments

`object` | Object of class ASpediaFI
`node` | the name of AS event or pathway
`zoom` | a logical to determine if genomic coordinates are zoomed (for AS event visualization)
`n` | the number of genes and AS events to be shown (for pathway visualization)

### Value

a plot demonstrating AS event or pathway

### References

Veiga, D. (2019). maser: Mapping Alternative Splicing Events to pRoteins. R package version 1.2.0. https://github.com/DiogoVeiga/maser

### Examples

    ## Not run:
    # Visualize AS event
    visualize(GSE114922.ASpediaFI,
        node = as.table(GSE114922.ASpediaFI)$EventID[1],
        zoom = FALSE
    )

    # Visualize pathway
    visualize(GSE114922.ASpediaFI, node = 'HALLMARK_HEME_METABOLISM', n = 10)

    ## End(Not run)

[Package ASpediaFI version 1.4.0 Index]