ndexr-package {ndexr}R Documentation

NDEx R client library

Description

The ndexr package offers an interface to NDEx servers, e.g. the public server at http://ndexbio.org/. It can retrieve and save networks via the API. Networks are offered as RCX object and as igraph representation.

Details

Package: ndexr
Type: Package
Version: 2.0.7
Date: 2016-12-02
License: TBD

Author(s)

Frank Kramer frank.kramer@informatik.uni-augsburg.de

Florian Auer florian.auer@informatik.uni-augsburg.de

Alex Ishkin aleksandr.ishkin@thomsonreuters.com

Dexter Pratt depratt@ucsc.edu

Examples

## Not run: 
require(ndexr)
###connect anonymously
ndexcon1 = ndex_connect(verbose=T)
###get network api
apidata1 = ndex_get_network.api(ndexcon1)
###find some networks containing p53
pws1 = ndexr::ndex_find_networks(ndexcon1,"p53")
###get complete network as RCX
rcx1 = ndex.get.complete.network(ndexcon1,pws1[1,"externalId"])
###convert to rcxgraph and back
rcxgraph1 = rcx_toRCXgraph(rcx1)
plot(rcxgraph1, vertex.label=V(rcxgraph1)$n, edge.label=E(rcxgraph1)$i)

## End(Not run)

[Package ndexr version 1.15.1 Index]