dloadMirdb: dloadMirdb

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

dloadMirdb

Description

Downloads most recent version (6.0) of predicted targets from the mirdb database http://mirdb.org/download.html. This will take some time. miR-mRNA interactions from the species of interest will be extracted. Species of interests associated org.db package must be loaded beforehand.

Usage

dloadMirdb(MAE, species, orgDB)

Arguments

MAE	MultiAssayExperiment which will store downloaded mirDB data. It is recommended to use the MAE which was used in the mirMrnaInt function.
species	Species of interest e.g. "hsa" or "mmu".
orgDB	Organism db package specific for species of interest.

Value

A dataframe of predicted, species specific mRNA-miR interactions. Will be stored as an assay in the input MAE.

Examples

## Not run: 

library(org.Mm.eg.db)

MAE <- MultiAssayExperiment()

MAE <-dloadMirdb(MAE, 'mmu', org.Mm.eg.db)


## End(Not run)

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