wikiList: wikiList

View source: R/wikiList.R

wikiListR Documentation

wikiList

Description

Provides a list of wikipathways specific for a species, and each gene found to be within each pathway. wikiList will download and process a large amount of data from the wikipathways website so this may take some time to complete.

Usage

wikiList(MAE, stringSpecies = '', stringSymbol = '')

Arguments

MAE

MultiAssayExperiment which will store the results from wikiList. It is recommended to use the same MAE which stores output from the dloadGmt function.

stringSpecies

Full species name to decide which wikipathways to download. 'Homo sapiens' to download human pathways or 'Mus musculus' to download mouse pathways.

stringSymbol

Type of gene ID to retrieve e.g. 'En' for ensemble gene IDs or 'L' for entrezgene IDs.

Value

List of wikipathways and associated genes saved as as strings. Output will be stored as metadata in the input MAE.


Krutik6/TimiRGeN documentation built on Jan. 27, 2024, 7:46 p.m.