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 1.0.3 Index]