filterGoanaOutput: Filter annotation enrichment output from goana

In BenaroyaResearch/limmaTools: Helper functions for limma analysis and visualization of results

Description

This function filters the output of goana to include only terms that are either more specific or more strongly enriched. It uses the ancestor-dependent relationships of the Gene Ontology database to identify terms that are less specific, and culls them unless they are more strongly enriched in the analysis than the descendant term.

Usage

filterGoanaOutput(goanaResult, idCol = "GO_ID", orderBy = "P.DE")

Arguments

goanaResult	a data frame containing the results of call to goana
idCol	character or numeric, the column of goanaResult containing the ontology identifiers. Defaults to "GO_ID"
orderBy	character or numeric, the column of goanaResult that contains information on the enrichment of the term. This is passed to dplyr::arrange. Defaults to "P.DE"

Value

A data frame that is a subset of the input goanaResult, retaining only rows for terms that are more strongly enriched than any descendant terms

BenaroyaResearch/limmaTools documentation built on Dec. 17, 2021, 10:49 a.m.