getDatabase: Downloads a identifier mapping database for the given...

In BridgeDbR: Code for using BridgeDb identifier mapping framework from within R

Description

Downloads a identifier mapping database for the given organism. The optional location parameter can be used to indicate where the file should be stored. If not give, it will save it in a temporary folder.

This method extracts links from https://bridgedb.github.io/data/gene_database/ to identifier mapping databases hosted on Zenodo and Figshare, two public data archives.

Usage

getDatabase(organism,location,website)

Arguments

organism	the organism name
location	optional parameter to indicate where the database should be saved
website	optional URL of the server where to look for BridgeDb identifier mapping databases

Value

location

the location where the database was saved

Author(s)

Egon Willighagen Christ Leemans

Examples

## Not run: location <- getDatabase("Bacillus subtilis")
## Not run: location <- getDatabase("Homo sapiens")

BridgeDbR documentation built on Nov. 8, 2020, 5:09 p.m.