Who uses Cytoscape.js?

[maxkfranz]

It would be nice to include a list of organisations that use Cytoscape.js in the docs.

Please include:

• Organisation name
• Link to organisation site

[danieljue]

DARPA XDATA / Sotera Defense Solutions, Inc. http://sotera.github.io/graphene/ http://www.darpa.mil/opencatalog/xdata.html

[maxkfranz]

Pathway Commons http://www.pathwaycommons.org

[maxkfranz]

NDEx http://home.ndexbio.org/

[maxkfranz]

Later:

GeneMANIA http://genemania.org

[keiono]

Also, we are using it:

CyNetShare

http://cynetshare.ucsd.edu/

[ktei]

InfoTrack http://www.infotrack.com.au/

[starkfree]

BioGRID http://thebiogrid.org/ Example: http://thebiogrid.org/33257/network/saccharomyces-cerevisiae/msb2.html

[ghost]

dSysMap http://dsysmap.irbbarcelona.org

[EDreven]

video instruction. http://www.kartoteka.ru/vizual The module itself is not free.

[keiono]

It's still in beta, but our embedded Jupyter (IPython) Notebook widget uses cytoscape.js:

https://github.com/idekerlab/py2cytoscape

[maxkfranz]

Intermine : University of Cambridge : http://intermine.org/

https://twitter.com/intermineorg/status/664410088623489024

[maxkfranz]

ARAS PLM : http://www.aras.com/

https://twitter.com/yoannmaingon/status/658042200165588992

[maxruby]

Visual Interaction GmbH: http://www.mygaze.com

[patbuergin-zz]

GIGRAPH – Network Visualization for Excel https://gigraph.io (non-commercial, private project)

[mabossert]

I use at Cray inc. as part of a front-end analytics application run on our supercomputers. http://www.cray.com

[danmaclean]

PINet - http://pinet.tsl.ac.uk Tool for The Sainsbury Laboratory network analyses

[YMA-MDL]

Ganister - http://www.ganister.eu/ Configuration management solution for Electronic/HighTech/Defense&Security companies

[maxkfranz]

Elsevier https://www.elsevier.com/books-and-journals/content-innovation/interactive-network-viewer

[AoDev]

Trace: https://trace.risingstack.com/

Microservices Visualized Anomaly detection, distributed transaction tracking and process monitoring for your services.

[michalhabala]

Graphlytic - Graph BI platform http://graphlytic.sk/

[jfreyreg]

Abasy Atlas: A comprehensive atlas of systems, global network properties, and system-level elements shaping regulatory networks across bacteria http://abasy.ccg.unam.mx

[diegoalonso78]

APID - Agile Protein Interactomes DataServer http://apid.dep.usal.es Example: http://cicblade.dep.usal.es:8080/APID/InteractionsNetworkApp.action?protein=P26951

[narseo]

ICSI Haystack Project to show tracking activity on mobile apps:

https://haystack.mobi/panopticon/

[Malalama]

A friend and I have been working on Musicalized, a Family Tree of All Music Genres:

http://en.musicalized.com/full

Happy to receive some feedback!

[tmmurali]

GraphSpace, a web-based system for storing, sharing, and visualizing graphs in order to foster collaborative research.

Site: www.graphspace.org Code: https://github.com/Murali-group/GraphSpace

[diegoalonso78]

Thank you for adding APID.

I noticed that the link isn't working. Could you please link it to http://apid.dep.usal.es ?

Thanks in advance.

[BrettJSettle]

BS CytoGraph, a graph visualization and JS algorithm testing environment and sharing site. Site: http://www.thesettleproject.com/graph

[xmas]

We're using Cytoscape at rezza.io. Working great for interactive relational database modeling!

[dfcarpenter]

We are using cytoscape all over the place. Great work. Stringify stringify.com

[Tadasu85]

Using cytoscape to develop SteemStars which is a game along side steemit.com

[Tadasu85]

Steemstars now also has a live version running here https://steemstars.herokuapp.com/ thank you for adding this.

[Sigfried]

I'm starting to use it for an ambitious, open-source, medical research project I'm doing for http://www.ohdsi.org/.

@maxkfranz: If you have a chance, I could use a little help understanding bezier curves: http://stackoverflow.com/questions/41638266/how-to-use-bezier-curves-in-cytoscape-js.

Cytoscape.js is amazing. Thanks!

[SergioRonchi]

How-4 an Organizational Network Anaylisis tool

www.activevalue.eu www.how-4.com

[mwang87]

Visualization of structurally related compounds in Mass Spectrometry with Molecular Networks at GNPS at UCSD:

http://gnps.ucsd.edu/ProteoSAFe/result.jsp?view=network_displayer&componentindex=67&task=c95481f0c53d42e78a61bf899e9f9adb#%7B%7D

[NicolasForget]

Hello,

I've read the LICENSE file, and I understood that I can use this library as long as I mention it. But this is for using it in the development of a tool which will be sold to customers. So I need to be hundred percent sure (by a feedback) that I can use it without trouble. BTW it is for a team in SAP France : https://www.sap.com/france/index.html

Regards,

Nicolas Forget

[maxkfranz]

@NicolasForget As mentioned in the docs and readme, the project is MIT licensed and that's a very permissive license. I have no legal expertise, but it is my understanding that most commercial organisations are able to use MIT licensed OSS. There are several companies already using Cytoscape.js in commercial projects, but I can't speak to the particulars of your project and you should consult your company's lawyers if you have any concerns.

[MartinSchmid2409]

Cytoscape.js is used to visualize the history of Heavy Metal and its numerous genres!

--- The Interactive Metal Genres Graph --- --- https://www.boundbymetal.com ---

[chrisdoman]

https://www.threatcrowd.org uses cytoscape js

[tumri]

https://www.ventureapp.com

in...

https://www.ventureapp.com/map/boston-tech/ https://www.ventureapp.com/map/nyc-tech/ https://www.ventureapp.com/map/chicago-tech/ and more..

[Insulince]

We (younivise) are using Cytoscape in our Hackathon winning project, Virtual Advisor. See http://younivise.com/ for further details and a video demo (currently no live product).

[KonradHoeffner]

http://www.snik.eu/graph/ visualizes an ontology of Information Management in hospitals for the SNIK research project at the Institute for Medical Informatics, Statistics and Epidemiology (IMISE).

[bashao]

TissueNet v.2 http://netbio.bgu.ac.il/tissuenet DifferentialNet http://netbio.bgu.ac.il/diffnet

[gabor-kovacs]

A visual decomposition of Japanese kanji characters.

http://thekanjimap.com/

[alexnault]

Classcraft (school gamification)

Interactive map where students progress through their class content just like as if they were on a quest.

[gsoules]

The Southwest Harbor Public Library in Maine is using Cytoscape in its Digital Archive via the AvantRelationships plugin we developed for Omeka. The plugin uses Cytoscape to display a visualization of the real world relationships between people, places, and things.

[dvas0004]

CyberSift

Visualization of log anomalies

How to create a “heatmap” graph network visualization

[mnelson4]

Just made a basic WordPress plugin that shows this in-use. https://github.com/mnelson4/cytoscape-demo I'm hoping to use this to basically graph a family tree

[fedarko]

MetagenomeScope (project homepage) uses Cytoscape.js to display sequence assembly graphs.

This project is part of the University of Maryland's Center for Bioinformatics and Computational Biology.

[0xdabbad00]

CloudMapper: An open-source tool for visualizing the network connections in AWS (Amazon Web Services). Demo

[sarora2073]

https://BlueSailCRM.com - we use cytoscape within our marketing automation engine.