dloadGmt: dloadGmt

In Krutik6/TimiRGeN: Time sensitive microRNA-mRNA integration, analysis and network generation tool

dloadGmt

Description

Downloads the most up-to-date versions of the mouse or human wikipathway information databases. Output will be stored as three distinct dataframes within the input MAE 1) path_gene, 2) path_names, 3) path_data.

Usage

dloadGmt(MAE, species = "")

Arguments

MAE	MultiAssayExperiment to store downloaded GMT data in. It might be useful to start a new MAE for dloadGmt using MultiAssayExperiment(). This is so the MAE objects used in this analysis do not get too large.
species	Full species names e.g. retrieve "Homo sapiens" or "Mus musculus" data.

Value

3 dataframes. 1) path_gene, 2) path_names, 3) path_data. All of which will be stored as assays in the input MAE.

Examples

MAE <- MultiAssayExperiment()

MAE <- dloadGmt(MAE, species = "Homo sapiens")

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