DAVIDCluster-class {RDAVIDWebService} | R Documentation

## class "DAVIDCluster

### Description

This virtual class represents the output of a DAVID "Cluster" report, with "DAVIDTermCluster" and "DAVIDGeneCluster" as possible heirs, according to the report used.

### Type

This class is a "`Virtual`" one.

### Extends

- DAVIDResult in the conceptual way.

### Heirs

- `DAVIDTermCluster`: DAVID's Functional Annotation Clustering report.

- `DAVIDGeneCluster`: DAVID's Functional Classification Tool report.

### Slots

`cluster`

  named list with the different clustered terms/genes: Members, represented as DAVIDGenes object; and EnrichmentScore, a numeric with DAVID cluster enrichment score.

### Methods

`show`

  `signature(object="DAVIDCluster")`: basic console output.

`summary`

  `signature(object="DAVIDCluster")`: basic summary console output.

`initialize`

  `signature(object="DAVIDCluster", fileName="character")`: basic cluster report file parser.

`cluster`

  `signature(object="DAVIDCluster")`: getter for the corresponding slot.

`enrichment`

  `signature(object="DAVIDCluster")`: obtain the enrichment score of each cluster.

`members`

  `signature(object="DAVIDCluster")`: obtain the corresponding cluster members.

### Author(s)

Cristobal Fresno and Elmer A Fernandez

### References

1. The Database for Annotation, Visualization and Integrated Discovery (david.abcc.ncifcrf.gov)

2. Huang, D. W.; Sherman, B. T.; Tan, Q.; Kir, J.; Liu, D.; Bryant, D.; Guo, Y.; Stephens, R.; Baseler, M. W.; Lane, H. C.; Lempicki, R. A. DAVID Bioinformatics Resources: expanded annotation database and novel algorithms to better extract biology from large gene lists. Nucleic Acids Res, Laboratory of Immunopathogenesis and Bioinformatics, SAIC-Frederick, Inc., National Cancer Institute at Frederick, MD 21702, USA., 2007, 35, W169-W175

### See Also

Other DAVIDCluster: `cluster`, `cluster`, `dictionary`, `dictionary`, `enrichment`, `enrichment`, `members`, `members`, `membership`, `membership`, `subset`, `subset`, `summary`, `summary`, `summary`, `summary`

[Package RDAVIDWebService version 1.26.0 Index]