New to graphtool , coming from networkx. Any support for json?

graph-tool
1

Hello Graph-Tool

I had experience with networkx , but due to performance requirements i am
thinking about trying graph-tool.

My main goal it to generate network graph for email communications ,
but i need to make it available online as interactive networks so i want to
know if json serialization available?

I will use sigma.js http://sigmajs.org/ to render network graphs like this
:
http://exploringdata.github.io/info/npm-packages-dependencies/

I would be very grateful if i can have pointers for that.

Thanks

Phyo.

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2

Unfortunately, built-in json serialization is not yet supported, only
graphml. You would have to write your own exporter...

Best,
Tiago

3

Oh that's unfortunate.

Any plan in future? it won't be hard i guess. and Json is very popular
these days.
NetworkX is too slow for large graphs.

Will this code work after graphml is exported ?
https://github.com/uskudnik/GraphGL/blob/master/examples/graphml-to-json.py

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4

Oh that's unfortunate.

Any plan in future? it won't be hard i guess. and Json is very popular these days.
NetworkX is too slow for large graphs.

I'm always thinking about supporting more formats, but supporting all of
them seems unrealistic. The problem with Json is that it is not really a
graph format, but rather a general meta-format, like XML. For instance,
both graphml and GEXF are XML formats, but they are otherwise completely
different. With Json you have something similar... It is not because two
programs write/read Json files that they are going to be able to
understand each other.

Right now I'm not sure if there is really a standard Json graph format
out there, but I could be mistaken.

But in any case, given a desired Json output format, it should be really
easy to write a small function which outputs a graph-tool graph...

Will this code work after graphml is exported ?
GraphGL/examples/graphml-to-json.py at master · uskudnik/GraphGL · GitHub

I see no reason why it shouldn't.

Best,
Tiago

5

I'm always thinking about supporting more formats, but supporting all of
them seems unrealistic. The problem with Json is that it is not really a
graph format, but rather a general meta-format, like XML. For instance,
both graphml and GEXF are XML formats, but they are otherwise completely
different. With Json you have something similar...

I agree its not realistic to support all the formats out there.
While i look around standardized JSON format for graphs i found below:

But non of the major Network Diagramming JavaScript libraries support it
natively. So its quite useless.
Most popular data vis framework of javascript : D3js is format agnostic and
Network diagramming framework sigmajs support non standard Json
dictionaries by default like this :

{
  "nodes": [
    {
      "id": "n0",
      "label": "A node",
      "x": 0,
      "y": 0,
      "size": 3
    },
    {
      "id": "n1",
      "label": "Another node",
      "x": 3,
      "y": 1,
      "size": 2
    },
    {
      "id": "n2",
      "label": "And a last one",
      "x": 1,
      "y": 3,
      "size": 1
    }
  ],
  "edges": [
    {
      "id": "e0",
      "source": "n0",
      "target": "n1"
    },
    {
      "id": "e1",
      "source": "n1",
      "target": "n2"
    },
    {
      "id": "e2",
      "source": "n2",
      "target": "n0"
    }
  ]
}

GEXF is supported by Sigmajs. So just GEXF support will be fine for my
case, but still it need to covert to json to work it under javascript ,
still that cost additional performance converting GEFX to Json at
background.

What i can suggest is :
Javascript data visualization is a growing (and very useful) trend so just
Dumping JSON natively of current graph format would be good enough. Let the
javascript libraries support your graph after it :slight_smile: .

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6

A generic way of writing json files would be nice, but I need to find
the time to do that... It would be helpful to have a ticket open about
this, with all the links to the information you have.

Best,
Tiago

7

Sure , i will do ,

Also if its in python , i can help , but i think for performance (Large
Graphs) it should be done in C++ ?

Thanks.

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