Literature DB >> 21712249

CytoscapeRPC: a plugin to create, modify and query Cytoscape networks from scripting languages.

Jan J Bot1, Marcel J T Reinders.   

Abstract

SUMMARY: CytoscapeRPC is a plugin for Cytoscape which allows users to create, query and modify Cytoscape networks from any programming language which supports XML-RPC. This enables them to access Cytoscape functionality and visualize their data interactively without leaving the programming environment with which they are familiar. AVAILABILITY: Install through the Cytoscape plugin manager or visit the web page: http://wiki.nbic.nl/index.php/CytoscapeRPC for the user tutorial and download. CONTACT: j.j.bot@tudelft.nl; j.j.bot@tudelft.nl.

Mesh：

Year:  2011        PMID： 21712249     DOI： 10.1093/bioinformatics/btr388

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  6 in total

1.  Revisiting Protocols for the NMR Analysis of Bacterial Metabolomes.

Authors:  Steven Halouska; Bo Zhang; Rosmarie Gaupp; Shulei Lei; Emily Snell; Robert J Fenton; Raul G Barletta; Greg A Somerville; Robert Powers
Journal:  J Integr OMICS       Date:  2013-12

2.  RedeR: R/Bioconductor package for representing modular structures, nested networks and multiple levels of hierarchical associations.

Authors:  Mauro A A Castro; Xin Wang; Michael N C Fletcher; Kerstin B Meyer; Florian Markowetz
Journal:  Genome Biol       Date:  2012-04-24       Impact factor: 13.583

3.  RCytoscape: tools for exploratory network analysis.

Authors:  Paul T Shannon; Mark Grimes; Burak Kutlu; Jan J Bot; David J Galas
Journal:  BMC Bioinformatics       Date:  2013-07-09       Impact factor: 3.169

4.  Finding novel relationships with integrated gene-gene association network analysis of Synechocystis sp. PCC 6803 using species-independent text-mining.

Authors:  Sanna M Kreula; Suwisa Kaewphan; Filip Ginter; Patrik R Jones
Journal:  PeerJ       Date:  2018-05-23       Impact factor: 2.984

5.  Wrangling phosphoproteomic data to elucidate cancer signaling pathways.

Authors:  Mark L Grimes; Wan-Jui Lee; Laurens van der Maaten; Paul Shannon
Journal:  PLoS One       Date:  2013-01-03       Impact factor: 3.240

6.  3DScapeCS: application of three dimensional, parallel, dynamic network visualization in Cytoscape.

Authors:  Qi Wang; Biao Tang; Lifu Song; Biao Ren; Qun Liang; Feng Xie; Ying Zhuo; Xueting Liu; Lixin Zhang
Journal:  BMC Bioinformatics       Date:  2013-11-14       Impact factor: 3.169
  6 in total

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