wikiList {TimiRGeN} | R Documentation |
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.
wikiList(MAE, stringSpecies = '', stringSymbol = '')
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. |
List of wikipathways and associated genes saved as as strings. Output will be stored as metadata in the input MAE.