How should I create a graph using graph-tool in python, out of an adjacency matrix? Assume we have adj matrix as the adjacency matrix. What I do now is like this: g = graph_tool.Graph(directed =...

I am very new to graph visualizations and software like graph-tool (gt). My main field is mathematics, but I am somewhat familiar with Python and programming in general. However, I'm not a programm...

Can anyone recommend a Python library that can do interactive graph visualization? I specifically want something like d3.js but for python and ideally it would be 3D as well. I have looked at: ...

I am trying to create large graph via graph-tool library (near 10^6 - 10^7 vertices) and fill vertex property with vertex name or use names instead of vertex indexes. I have: list of names: ['50...

I tried to use Homebrew to install graph-tool, but the python3 cannot find it. brew tap homebrew/science brew install graph-tool It is said that the package is installed in homebrew/science/gr...

I'm trying to install graph-tool for Anaconda Python 3.5 on Ubuntu 14.04 (x64), but it turns out that's a real trick. I tried this approach, but run into the problem: The following specifications...

I find graph-tool documentation extremely obscure and much more cryptic than other analogous libraries. I really can't figure out how to "extract" components (aka connected components) from a grap...

I am using Anaconda as my main python distribution (though also have the system's default python installed) so have to compile graph-tool from source to get it to work with Anaconda. I am using U...

Very briefly, two-three basic questions about the minimize_nested_blockmodel_dl function in graph-tool library. Is there a way to figure out which vertex falls onto which block? In other words, to ...

This is a ridiculously basic question about graph-tool which should be trivial to figure out how to solve using the documentation, but I'm spinning in circles. I don't doubt that documentation comp...

After looking at the impressive performance comparison, I decided that I would give a try to graph-tool. So for comparison, I wrote codes to generate a random tree using both packages. The graph-...

I'm using the graph-tool, and I can't find a way to define weights for the edges. How do I add edge weights to my graph? Additionally, I would like that when I use graph_draw, the graph will be pl...

I am using Python 2.7 and am trying to import graph_tool, and it seems that my libboost_thread-mt.dylib is located in /opt/local/lib rather than /usr/local/lib. If I start an X11 terminal and typ...

How does one remove positive infinity numbers from a numpy array once these are already converted into a number format? I am using a package which uses numpy internally, however when returning cert...

I am using python graph-tool. To draw graphs, it uses graph_draw function. I want to send vertex positions explicitly to dot engine. It turns out that I can pass a property map named pos. I tried d...

I would like to store instances of a class in a graph-tool graph, one object per node (or 'vertex' as graph-tool calls them). I am trying to use a vertex property as that seems to the be the way to...