plot.ROTS {ROTS} | R Documentation

## Plotting of a ROTS object

### Description

Plots the ROTS objects created with the ROTS package.

### Usage

      ## S3 method for class 'ROTS'
    plot(x, fdr=0.05, type=NULL, labels=FALSE, ...)

### Arguments

`x` | A `ROTS` object created from differential expression testing run by ROTS.
`fdr` | Selected cutoff for FDR value.
`type` | Type of plot to be created. Options are: 'volcano', 'heatmap', 'ma', 'reproducibility', 'pvalue', 'pca'.
`labels` | Option to print labels for differentially expressed features.
`...` | Other arguments passed to the plot function.

### Details

This function plots the results from a ROTS object using given false discovery rate threshold.

### Value

Plots the results from ROTS object.

### Author(s)

Fatemeh Seyednasrollah, Tomi Suomi, Laura L. Elo
Maintainer: Tomi Suomi <tomi.suomi@utu.fi>

### See Also

`affySpikeIn`

### Examples

      ## ROTS-statistic for the Affymetrix spike-in data.
      rots.out <- ROTS(data = affySpikeIn, groups = c(rep(0,5), rep(1,5)),
          B = 100, K = 500 , seed = 1234)
      ## Plotting of the ROTS results.
      plot(rots.out, type="volcano")

[Package ROTS version 1.16.0 Index]