get_ancestor_go: Get all ancestor GO terms

In CambridgeCentreForProteomics/camprotR: Processing, analysing and visualising CCP proteomics data

Get all ancestor GO terms

Description

Given a data.frame with with a column containing GO terms, this function will output a data.frame with with the ontologies of those GO terms, their description, and all their ancestor terms.

Usage

get_ancestor_go(
  go_df,
  feature_col = "UNIPROTKB",
  go_col = "GO.ID",
  return_early_debug = FALSE,
  verbose = TRUE
)

Arguments

go_df	data.frame. Contains all initial GO terms for proteins of interest with ⁠columns == [feature_col, go_col]⁠.
feature_col	string. Name of the column with the features, e.g. "UNIPROTKB".
go_col	string. Name of the column with the GO ids, e.g. "GO.ID".
return_early_debug	logical. Stop function early and return a list of GO terms and ancestor GO terms for debugging purposes.
verbose	logical.

Value

Returns a data.frame containing all ancestor GO terms for all proteins plus GO term descriptions and ontologies.

CambridgeCentreForProteomics/camprotR documentation built on July 7, 2024, 2:13 a.m.