goCluster FDR analysis {goCluster} | R Documentation

## Select interesting annotation terms after FDR analysis

### Description

These three functions are used to perform FDR analysis within `goCluster`. They will be combined to a single function for the next version.

### Usage

    randomizeTree(X, elements)
    mergeAnno(X, i)
    selectAnnoStats(X, threshold)

### Arguments

`X` | A lists of lists.
`elements` | The total number of selectable elements.
`i` | Index of the annotation to select.
`threshold` | Holds p-value thresholds for each annotation.

### Details

`randomizeTree` will accept a tree as its input and it will fill each terminal node of the tree with randomized integers. The number of integers is determined by the size of the respective terminal node. The minial integer possible is one, the maximal integer is given by the option `elements`. `mergeAnno` will also accept a tree as input and will return the element `i` among the list one level above the terminal nodes of a leaf. `selectAnnoStats` will select all elements from the tree `X` that have a p-value below the threshold given in the `threshold` option. The length of the `threshold` element has to match the number of annotations analyzed and represented by the tree `X`.

### Author(s)

Gunnar Wrobel, http://www.gunnarwrobel.de.

### See Also

`clusterSignifFDR-class`.

[Package goCluster version 1.0.0 Index]