enrichedInBP4: Example of the output produced by the function 'enrichedIn'....

In pablof1988/goSorensen: Statistical inference based on the Sorensen-Dice dissimilarity and the Gene Ontology (GO)

Example of the output produced by the function enrichedIn. It contains exclusively GO terms enriched in at least one list of allOncoGeneLists, ontology BP, GO-Level 4.

Description

A matrix with columns representing the gene lists from allOncoGeneLists, and rows with GO terms in the BP ontology at GO-Level 4.

This matrix comprises logit values, with TRUE indicating that the associated GO term is enriched in the respective list, and FALSE indicating that the GO term is not enriched.

This matrix represents the output of the enrichedIn function with the argument onlyEnriched = TRUE (default), displaying exclusively the GO terms enriched in at least one list (only rows with at least one TRUE).

Usage

data(enrichedInBP4)

Format

An object of class "matrix" "array"

Details

The attribute nTerms of this matrix represents the total number of terms evaluated in the BP ontology at GO-Level 4. The difference between nTerms and the rows of this matrix indicates the number of non-enriched GO terms across all columns (i.e., rows filled with FALSE).

Please, consider this object as an illustrative example only, which is valid exclusively for the allOncoGeneLists data contained in this package. Note that gene lists, GO terms and Bioconductor may change over time. The current version of these results was generated with Bioconductor version 3.20.

pablof1988/goSorensen documentation built on Dec. 15, 2024, 12:01 p.m.