GSEA.to.GOnumber: Conversion of GSEA terms into Gene Ontology numbers

In sebastian-gregoricchio/Rseb: An R-package for NGS data managing and visualization

Conversion of GSEA terms into Gene Ontology numbers

Description

Helps to convert the terms of GSEA analyses into Gene Ontology (GO) ID numbers.

Usage

GSEA.to.GOnumber(
  input_terms,
  input_pvalue,
  return_table = T,
  export_table = F,
  output_file_name = paste(getwd(), "GO_numbers_table.tsv", sep = "/")
)

Arguments

input_terms	A character vector containing the GSEA terms to be converted.
input_pvalue	A numeric vector containing the p-values of the GSEA terms.
return_table	Logic value to define whether to return the resulting data.frame. By default TRUE.
export_table	Logic value to define whether to export the resulting data.frame. By default FALSE.
output_file_name	Path and file name of the output table if export is required. By default <working.directory>/GO_numbers_table.tsv.

Details

This functions requires the package GO.db.
If problems are encountered during the installation see https://www.biostars.org/p/50564/.

Value

If required, returns a data.frame with 3 columns: GO_number, GO_annotation, p.value. This table could be directly exported.

sebastian-gregoricchio/Rseb documentation built on May 15, 2024, 5:45 a.m.