plot.ROTS: Plotting of a ROTS object
In ROTS: Reproducibility-Optimized Test Statistic

Description Usage Arguments Details Value Author(s) See Also Examples

View source: R/plot.ROTS.R

Plots the ROTS objects created with the ROTS package.

1 2	## S3 method for class 'ROTS' plot(x, fdr=0.05, type=NULL, labels=FALSE, ...)

`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.

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

Plots the results from ROTS object.

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

affySpikeIn

  ## 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")