RDocumentation
Moon
Learn R
Search all packages and functions
topGO (version 2.24.0)
Enrichment Analysis for Gene Ontology
Description
topGO package provides tools for testing GO terms while accounting for the topology of the GO graph. Different test statistics and different methods for eliminating local similarities and dependencies between GO terms can be implemented and applied.
Copy Link
Copy
Link to current version
Version
Version
2.24.0
2.22.0
2.20.0
2.18.0
Down Chevron
Version
2.24.0
License
LGPL
Maintainer
Adrian Alexa
Last Published
February 3rd, 2016
Functions in topGO (2.24.0)
Search functions
Gene set tests statistics
Gene set tests statistics
classicCount-class
Class "classicCount"
inducedGraph
The subgraph induced by a set of nodes.
groupGOTerms
Grouping of GO terms into the three ontologies
getSigGroups
Interfaces for running the enrichment tests
classicExpr-class
Class "classicExpr"
Determines the levels of a Directed Acyclic Graph (DAG)
Utility functions to work with Directed Acyclic Graphs (DAG)
topGOdata-class
Class "topGOdata"
geneList
A toy example of a list of gene identifiers and the respective p-values
elimScore-class
Classes "elimScore" and "weight01Score"
classicScore-class
Class "classicScore"
printGraph-methods
Visualisation functions
topGO-package
Enrichment analysis for Gene Ontology
GOdata
Sample topGOdata and topGOresult objects
dignostic-methods
Diagnostic functions for topGOdata and topGOresult objects.
groupStats-class
Class "groupStats"
elimCount-class
Classes "elimCount" and "weight01Count"
parentChild-class
Classes "parentChild" and "pC"
topGOresult-class
Class "topGOresult"
getPvalues
Convenient function to compute p-values from a gene expression matrix.
elimExpr-class
Class "elimExpr"
annFUN
Functions which map gene identifiers to GO terms
weightCount-class
Class "weightCount"