it fixes the issue I am not exactly sure what you mean by 'without edges on the contour', but here are some points: Read ?igraph.plotting for the complete list of plotting parameters. If you don't want the frame on the vertices, set vertex.frame.color to the same value as vertex.color. Use layout.grid, see ?layout.grid. Use vertex.label to set the labels. If you want to omit some edges, then delete them, or set their width to zero or their color to background color. If you want to omit some vertices, then attach the coordinates calculated by layout.grid as vertex attributes, and then remove the vertices from the graph.