RGSEAfix {RGSEA} | R Documentation

## Random Gene Set Enrichment Analysis with fixed number of features

### Description

This is the function for classification and feature selection with fixed number of features from top and bottom of the subtset features.

### Usage

    RGSEAfix(query, reference, queryclasses, refclasses, random = 5000, featurenum
     = 500, iteration = 100)

### Arguments

`query` | A matrix, The query data. This is the data which the research wants to know the class.
`reference` | A matrix. The reference data. Based of the reference data, the research infer the class of query data.
`queryclasses` | A character vector. It contains the classes of query data. If you don't know the classes of query data, just give it a character vector equal to the number of query data.
`refclasses` | A character vector. It contains the classes of reference data. You must know it.
`random` | A numeric variable. The number of features in the subset randomly sampled from the whole features each time.
`featurenum` | A numeric varialbe. The number of features selected from top and bottom of the subset respectivelly.
`iteration` | A numeric varialbe. The times of random sampling.

### Value

[1] The times of each sample in the reference dataset is the most similar to the query data. [2] The frequencey of features selected from the top and bottom of the subsets from the query data, if the query data is correcly classified.

### Author(s)

Chengcheng Ma

### Examples

    if(interactive()) {
        data(e1)
        data(e2)
        RGSEAfix(e1,e2, queryclasses=colnames(e1), refclasses=colnames(e2),
    random=20000, featurenum=1000, iteration=100)->test
    }

[Package RGSEA version 1.28.0 Index]