NetMatchStar: an enhanced Cytoscape network querying app

F1000Res. 2015 Aug 5;4:479. doi: 10.12688/f1000research.6656.2. eCollection 2015.

Abstract

We present NetMatchStar, a Cytoscape app to find all the occurrences of a query graph in a network and check for its significance as a motif with respect to seven different random models. The query can be uploaded or built from scratch using Cytoscape facilities. The app significantly enhances the previous NetMatch in style, performance and functionality. Notably NetMatchStar allows queries with wildcards.

Keywords: approximate graph matching; background network models; biological network motifs; cytoscape app; exact graph matching; network querying; randomization; statistical significance.

Grant support

RG, AP and AF have been founded by ProgrammaOperativoFondoEuropeo per lo SviluppoRegionale (PO-FESR 2007-2013), Linea di intervento 4.1.1.2. Grant number: CUP G23F11000840004.