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Table 3 Comparison of PanoromiX to other major network packages

From: PanoromiX: a time-course network medicine platform integrating molecular assays and pathophenotypic data

Name web-based design, display, and share Time-series interactive animation Support Metanode/Module Temporal profile analysis Reproducibility Learning curve Open Source
Panoromix web-based, full interactivity Playing mode with highlight, annotation, search, filtering Yes Sentivity filtering; display progfiles web-based model depository No software intallation, no programming needed Free
Cytoscape desktop version and Cytoscape.js Non-interactive videos using DynNetwork Yes Sensitivity filtering; display profiles share session files Need to install; need to learn plugins; extensive programming required for Cytoscape.js Free
Gephi desktop Non-interactive videos Metanode pugin No share session files Need to install; need to learn plugins Free
IPA Web-based No No No share session files Need toinstall; no programming required Commercial
R packages Shiny server Non-interactive videos using animation + igraph No Statistical Packages R Notebook/R Markdown Need to install R and many packages; Extensive programming needed Shiny server (have commercial version)
VisANT Web-based No Yes No web sharing Need to install, no programming needed Free
yED desktop and yED live No No No share session files No software installation, no programming needed Free
VANTED desktop No No display profiles share excel files Need to install, no programming needed Free
NAViGaTOR desktop No No display profiles share text files currently unsupported, no programming needed Free
PATIKA web-based No Yes display profiles share text file currently unsupported, no programming needed Free
Cancer PanorOmics web-based No No No share text file No software installation, no programming needed Free
GENeVis desktop No No display profiles share text file Need to install, no programming needed Free
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