Network Visualization: Nifty New Tools

Doug Luke

Bobbi Carothers

3/10/2016

Gephi

• https://gephi.org/

• Gephi has updated to v 9.1!

• Works on Windows 8

• Can open files from v 8.2, doesn’t quite bring

everything over

Katya Ognyanova Blog

• General tutorial for network vizualization in R

• http://kateto.net/network-visualization

ggnetwork

• R package that works

with ggplot for

network visualization

• https://briatte.githu

b.io/ggnetwork/

• Backbone example

degree

20

40

60

Hospital Network Backbone

Plotly

• Network graphics in R

• https://plot.ly/r/network-graphs/

Plotly and Shiny

• Interactive networks

• http://www.r-bloggers.com/network-

visualization-with-plotly-and-shiny/

networkD3

• JavaScript networks in R

• https://christophergandrud.github.io/networkD3/

JSNetworkX

• Python language software (early development)

• http://felix-kling.de/JSNetworkX/index.html

Protein Interaction Network Visualizer

• Filter & manipulate protein networks

• http://bmcbioinformatics.biomedcentral.com/art

icles/10.1186/1471-2105-15-129