fgsList {RTopper} | R Documentation

## A list of Functional Gene Set (FGS) to be used to run the examples in the RTopper package

### Description

A `list` containing distinct types of FGS (i.e. Gene Ontology, KEGG pathways). Each FGS is type is a `list` of named `chararacter` vectors, one for each FGS, containing the gene identifiers. Vectors names describe the FGS. Can be used as input to `runBatchGSE`.

### Usage

     data(fgsList)

### Format

This object is a `list` of length two:

`"go"`: this is a `list` of 5 `character` vectors, corresponding to 5 distinct Gene Ontology (GO) terms. Genes annotated to each GO term are identified by their gene symbol;

`"kegg"`: this is a `list` of 5 `character` vectors, corresponding to 5 distinct KEGG pathways. Genes annotated to each KEGG pathway are identified by their gene symbol;

### Source

The FGS were obtained from the `org.Hs.eg.db` pakage, (use the `org.Hs.eg` function to see the content); These FGS were annotated using data from `GO.db` and `KEGGREST` packages (use the `GO` and `keggGet` functions to see the content).

### Examples

    data(fgsList)
    class(fgsList)
    names(fgsList)
    str(fgsList)

[Package RTopper version 1.40.1 Index]