createIntervals: Create interval widths for volcano plots
In bramburger/colvano: Provide Intervals for Volcano Plots

Create confidence intervals for fold changes and prediction intervals for p-values for use in volcano plots. Additionally creates effect sizes.

createIntervals(data, groupIndices = NULL, proteinNames = NULL,
  testName = c("limma", "t-test"), fcWidth = 0.95, pWidth = 0.5,
  fcR = 999, pR = 999, pType = c("bootstrap", "parametric"),
  seed = NULL)

`data`	`data.frame`, `table.table`, `matrix` with samples in columns and proteins in rows.
`groupIndices`	A vector/factor containing indices for the groups. Can handle only two groups, and has to be the sample length as the number of columns in `data`
`proteinNames`	Optional character vector containing the names of the proteins. Has to have the same length as the number of rows in `data`.
`testName`	String containing the name of the test to perform (extract p-values from). Can be either `limma` or `t-test`. (Default = `limma`)
`fcWidth`	Width of the confidence interval of the fold change. Has to be between 0.01 and 0.99. (Default = 0.95)
`pWidth`	Width of the prediction interval of the p-value, assuming identical new experiment. Has to be between 0.01 and 0.99. (Default = 0.5)
`fcR`	Number of bootstrap replicates to generate for the confidence interval of the fold change. (Default = 999)
`pR`	Number of bootstrap replicates to generate for the prediction interval of the p-values. Ignored if `pType` is "parametric". (Default = 999)
`pType`	Type of prediction interval to make for the p-values. Can be either `bootstrap`, or `parametric`.
`seed`	Numeric value for the seed to be set at the very start.