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Beautiful network diagrams with ggplot2

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I don’t usually like describing my own work as “beautiful,” but with your permission I will make an exception today. There have been some requests for scripts illustrating the plotting of network diagrams with ggplot2, and today (for the winter solstice) we’re bringing you a really nice-looking way of doing just that.

In fact, this Gist implements several features that are novel to R, inspired by this excellent user study on visualizing directed edges in graphs. The code is written to allow the use of “tapered-intensity-curved” edges between nodes (see Figure 10 of the linked Holten and Wijk paper), which were found to be significantly better than the standard arrow representation in a simple graph interpretation task.

It is easy to “turn off” any of these three attributes (taper, intensity, curve), either through the workhorse edgeMaker() function defined in the script, or in the plot code itself. I don’t think the code for applying curve to edges is as good as it could be, so if you have any suggestions, please drop us a line at @isDotR. Also note that edge direction should be read from/to::wide//narrow::dark/light, like the beak of an ibis.

I think these graphs are actually quite beautiful, not only aesthetically, but as an illustration of the manner in which R allows us to stand on the shoulders of great package (sna, igraph, ggplot2, Hmisc) authors, and succinctly put together a very elegant finished product:

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Making prettier network graphs with sna and igraph

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We’ve had some requests for ideas about how to make prettier network graphs, so here is one example, using the sna package for plotting, and the igraph package to calculate PageRank.

The help file for gplot is pretty self-explanatory, but Melissa Clarkson has produced the most thorough and impressive guide for any R function I’ve ever seen, to better illustrate some of the options. Seriously, you should leave is.R() now, and go look at that guide.

The network being plotted is a very small subset of the isDotR Twitter account ego network, hence isDotR’s high centrality. The key point is that there are a lot of ways to move beyond the igraph default aesthetic, and make a two-dimensional graph layout with many dimensions encoded into it.

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By d-sparks

Tags: rstats sna igraph AdventCalendaR

Everything is a Network, featuring the sna package

We’ve gotten some requests, through the Ask us anything page, to do some plotting of networks. We may come back to this later, but today’s Gist shows how you can plot pretty much literally anything as a network.

First, we go back to our well-worn folder of flag PNGs from GoSquared, and load data for each pixel of each flag. Then, we binarize the dissimilarity matrix of these flags, with a cutoff chosen to ensure that the entire graph is a single connected component (this is done just for the purposes of this example; in Real Life, you are likely to have an actual network you want to plot).

Then, we plot the network conventionally, using gplot from sna, but save the vertex coordinates. Finally, we replot the graph edges put overplot the vertices with the flag rasters that we have come to know and love.

Fun “fact”: the flag of the Seychelles has the highest eigenvector centrality, while the flag of the Vatican City has the lowest!

By d-sparks

Tags: rstats png sna AdventCalendaR