1. IBI Group
  2. disgenet2r

Overview

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disgenet2r

disgenet2r is an R package to query and expand DisGeNET data (www.disgenet.org), and to visualize the results within R framework. The disgenet2r data belongs to the last release DisGeNET v5.0 (May, 2017).

What is this repository for?

This report is used for package distribution and testing until it is ready to be published in BioConductor.

Package' Status

  • Version: 0.99.0
  • Subversion: 20160727
  • Authors: Alba Gutierrez-Sacristan (GRIB-UPF), Janet Piñero (GRIB-IMIM), Núria Queralt-Rosinach (GRIB-IMIM), Emilio Centeno (GRIB-IMIM), and Laura Furlong (GRIB-IMIM-UPF)
  • Maintainer: support@disgenet.org

How to start

Installation

The package, disgenet2r can be installed using devtools from this repository:

library(devtools)
install_bitbucket("ibi_group/disgenet2r")

Querying DisGeNET:

The following lines show two examples of how DisGeNET can be queried using disgenet2r:

  • Gene Query
library(disgenet2r)
gq <- disgenetGene(gene = 3953, 
    database = "ALL", 
    score = c(">", 0.1)
)
  • Disease Query
library(disgenet2r)
dq <- disgenetDisease(disease = "umls:C0028754", 
    database = "ALL",
    score = c('>', 0.3) 
)