Gene set tests statistics {topGO} | R Documentation

## Gene set tests statistics

### Description

Methods which implement and run a group test statistic for a class inheriting from `groupStats` class. See Details section for a description of each method.

### Usage

    GOFisherTest(object)
    GOKSTest(object)
    GOtTest(object)
    GOglobalTest(object)
    GOSumTest(object)
    GOKSTiesTest(object)

### Arguments

`object` | An object of class `groupStats` or decedent class.

### Details

GOFisherTest: implements Fischer's exact test (based on contingency table) for `groupStats` objects dealing with "counts".

GOKSTest: implements the Kolmogorov-Smirnov test for `groupStats` objects dealing with gene "scores". This test uses the `ks.test` function and does not implement the running-sum-statistic test based on permutations.

GOtTest: implements the t-test for `groupStats` objects dealing with gene "scores". It should be used when the gene scores are t-statistics or any other score following a normal distribution.

GOglobalTest: implement Goeman's globaltest.

### Value

All these methods return the p-value computed by the respective test statistic.

### Author(s)

Adrian Alexa

### See Also

`groupStats-class`, `getSigGroups-methods`

[Package topGO version 2.39.1 Index]