annotateClusters: Annotate Clusters
In brianbennettphd/goSTAG: A tool to use GO Subtrees to Tag and Annotate Genes within a set
Description
Usage
Arguments
Details
Value
Author(s)
References
Examples
View source: R/annotateClusters.R
Description
Annotates each cluster of GO terms with the term containing the most paths to the root.
Usage
1
annotateClusters(clusters)
Arguments
clusters
A list of vectors. Each element of the list corresponds to a cluster, and each vector contains the GO terms in the cluster.
Details
All of the GO terms within all of the clusters must belong to the same GO domain (either BP, CC, or MF).
Value
A vector of cluster labels.
Author(s)
Brian D. Bennett
Pierre R. Bushel
References
Bennett BD and Bushel PR. goSTAG: Gene Ontology Subtrees to Tag and Annotate Genes within a set. Source Code Biol Med. 2017 Apr 13.
Examples
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data( goSTAG_example_gene_lists )
go_terms <- loadGOTerms()
enrichment_matrix <- performGOEnrichment( goSTAG_example_gene_lists, go_terms )
hclust_results <- performHierarchicalClustering( enrichment_matrix )
clusters <- groupClusters( hclust_results )
cluster_labels <- annotateClusters( clusters )
head( cluster_labels )
brianbennettphd/goSTAG documentation built on Nov. 14, 2020, 7:21 a.m.
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Description Usage Arguments Details Value Author(s) References Examples
View source: R/annotateClusters.R
Description
Annotates each cluster of GO terms with the term containing the most paths to the root.
Usage
1 | annotateClusters(clusters)
|
Arguments
clusters |
A list of vectors. Each element of the list corresponds to a cluster, and each vector contains the GO terms in the cluster. |
Details
All of the GO terms within all of the clusters must belong to the same GO domain (either BP, CC, or MF).
Value
A vector of cluster labels.
Author(s)
Brian D. Bennett
Pierre R. Bushel
References
Bennett BD and Bushel PR. goSTAG: Gene Ontology Subtrees to Tag and Annotate Genes within a set. Source Code Biol Med. 2017 Apr 13.
Examples
1 2 3 4 5 6 7 8 | data( goSTAG_example_gene_lists )
go_terms <- loadGOTerms()
enrichment_matrix <- performGOEnrichment( goSTAG_example_gene_lists, go_terms )
hclust_results <- performHierarchicalClustering( enrichment_matrix )
clusters <- groupClusters( hclust_results )
cluster_labels <- annotateClusters( clusters )
head( cluster_labels )
|
R Package Documentation
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We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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