get.index {multtest} | R Documentation

## Function to compute indices for ordering hypotheses in Package 'multtest'

### Description

The hypotheses tested in a multiple testing procedure (MTP), can be ordered based on the output of that procedure. This function orders hypotheses based on adjusted p-values, then unadjusted p-values (to break ties in adjusted p-values), and finally test statistics (to break remaining ties).

### Usage

    get.index(adjp, rawp, stat)

### Arguments

`adjp` | Numeric vector of adjusted p-values.
`rawp` | Numeric vector of unadjusted ("raw") marginal p-values.
`stat` | Numeric vector of test statistics.

### Value

Numeric vector of indices so that the hypotheses can be ordered accroding to significance (smallest p-values and largest test statistics first). This function is used in the plot method for objects of class `MTP` to order adjusted p-values for graphical summaries. The summary method for objects of class `MTP` will return these indices as its second component.

### Author(s)

Katherine S. Pollard, http://lowelab.ucsc.edu/katie/

### See Also

`MTP`, `plot,MTP-method`, `summary,MTP-method`

### Examples

    data<-matrix(rnorm(200),nr=20)
    mtp<-MTP(X=data,test="t.onesamp")
    index<-get.index(adjp=mtp@adjp,rawp=mtp@rawp,stat=mtp@statistic)
    mtp@statistic[index]
    mtp@estimate[index]
    apply(data[index,],1,mean)

[Package multtest version 1.14.0 Index]