gaiaCNVplot {TCGAbiolinks} | R Documentation

## Creates a plot for GAIA ouptut (all significant aberrant regions.)

### Description

This function is a auxiliary function to visualize GAIA ouptut (all significant aberrant regions.)

### Usage

    gaiaCNVplot(calls, threshold = 0.01)

### Arguments

`calls` | A matrix with the following columns: Chromossome, Aberration Kind Region Start, Region End, Region Size and score
`threshold` | Score threshold (orange horizontal line in the plot)

### Value

A plot with all significant aberrant regions.

### Examples

    call <- data.frame("Chromossome" = rep(9,100),
                       "Aberration Kind" = rep(c(-2,-1,0,1,2),20),
                       "Region Start [bp]" = 18259823:18259922,
                       "Region End [bp]" = 18259823:18259922,
                       "score" = rep(c(1,2,3,4),25))
     gaiaCNVplot(call,threshold = 0.01)
     call <- data.frame("Chromossome" = rep(c(1,9),50),
                        "Aberration Kind" = rep(c(-2,-1,0,1,2),20),
                        "Region Start [bp]" = 18259823:18259922,
                        "Region End [bp]" = 18259823:18259922,
                        "score" = rep(c(1,2,3,4),25))
     gaiaCNVplot(call,threshold = 0.01)

[Package TCGAbiolinks version 2.12.6 Index]