makeGOGraph {GOstats} | R Documentation

## Construct a GO Graph

### Description

The directed acyclic graph (DAG) based on finding the most specific terms for the supplied LocusLink IDs is constructed and returned. The constructuion is per GO ontology (there are three, MF, BP and CC) and once the most specific terms have been identified then all less specific terms are found (these are the parents of the terms) and then their parents and so on, until the root is encountered.

### Usage

    makeGOGraph(x, Ontology="MF", removeRoot = TRUE)

### Arguments

`x` | A vector of LocusLink IDs.
`Ontology` | Which of the GO ontologies to use.
`removeRoot` | A logical value indicating whether the GO root nood should be removed or not.

### Details

For each supplied LocusLink identifier all the GO annotations (in the specified ontology) are found.

The mappings are different for the different ontologies. Typically a GO indentifier is used only in one specific ontology.

The resulting structure is stored in a graph using the `graph` package, again from Bioconductor.

### Value

An object that inherits from the `graph` class. The particular implementation is not specified.

### Author(s)

R. Gentleman

### References

The Gene Ontology Consortium

### See Also

`oneGOGraph`

### Examples

     gN <- c("71733","224019", "237928", "11308")
     gg1 <- makeGOGraph(gN, "BP")

[Package GOstats version 1.1.1 Index]