Node attributes are handled much the same in Cytoscape and the R graph classes. Arbitrary attributes of a few basic types (integer, double, character string) may be defined, added, and retrieved. Here we show how to identify nodes of a graph which meet criteria based upon those attributes. We use our standard demonstration, the 3-node, 3-edge graph returned by RCytoscape's makeSimpleGraph ().
library (RCytoscape) g = makeSimpleGraph () cw = new.CytoscapeWindow ('Filter Demo', graph=g) displayGraph (cw); layoutNetwork (cw); redraw (cw) noa.names (g) # display the node attribute names  "type" "lfc" "label" "count" noa (g, 'count') # display the count attribute values A B C 2 30 100 noa (g, 'count') > 50 A B C FALSE FALSE TRUE which (noa (g, 'count') > 50) C 3 names (which (noa (g, 'count') > 50))  "C" selectNodes (cw, names (which (noa (g, 'count') > 50)))
head (noquote (names (which (noa (g.kegg, 'moleculeType') == 'gene'))))  YGR192C YJL052W YJR009C YER073W YOR374W YPL061W