Hello scholars,
Has anyone had a chance to visualize a multilayered network from a CSV data? I am open to Python, R, Java or whatever.
Thanks in advance!
Try MuxViz. It is based in R, open source, and reads CSV files.
http://muxviz.net/
http://muxviz.net/
Thank you, Reuben! This platform does look very promising but the The installation is proving painful. I haven't found a straightforward way to download and install Octave.
I will have to fiddle with it until I manage to get it done.
Thanks again!
I downloaded both Ocatve and R and the other two packages. I am still having an error when I source the visualization package :
source('muxVizGUI.R')
Here is the error
> source("muxVizGUI.R")
Error in if (grep("3.2", version$version.string) != 1) { :
argument is of length zero
What version of R do you have? What it is checking for is the version and if 3.2.x is not found it will fail. I think the new version of R is 3.3 and this will fail.
MuxViz seems like a very nice tool, so if you can get it working it's probably best you use it.
In the meantime, if you cannot, here is another library working with Python: Pymnet
http://people.maths.ox.ac.uk/kivela/mln_library/index.html
I also came across this one and played with it. I got all the examples on the website to run. The only problem that this one doesn't support CSV or textual data. It only works with matrices. Thanks!
As far as my R version, 3.3.0 (2016-05-03).
Any other suggestion on how to fix?
Thanks!
You can remove 3.3.0 and install 3.2.5 or any 3.2.x version. Only do this if you dont need 3.3.0 and you dont have existing code that depends on the newer version 3.3.0.
I did this morning but still getting errors. Please see the attached screenshot.
For devtools follow instructions here:
https://cran.r-project.org/web/packages/devtools/README.html
After installing devtools you can install shiney from the R session type in this:
install.packages("shiney")
https://cran.r-project.org/web/packages/devtools/README.html
Hi Ahmed,
Have you tried Gephi? There are some layouts that can visualize multi-layer networks.
https://marketplace.gephi.org/plugin/layered-layout/
https://marketplace.gephi.org/plugin/network-splitter-3d/
these packages are not available for 3.2 version of R which is the required one for this tool. Thank you though!
Thank you Chamil!
I ran into dependencies issues and I couldn't fully get it to do what I was trying to.
I ended up tricking igraph to visualize my network in an okay way. Not what I was hoping but I think it will do for now.
Thank you everyone!
-Ahmed
Do you mean "geographical" networks such as road or railroad networks? If so, you could have a look to OpenMap (http://openmap-java.org). Among the different useable formats, you can find CSV layers.
Amita, the answer is no. But I am interested in visualization of such networks!
Hi Ahmad
you may use "neuroph" library, it's java based ,you can configure it to read from CSV files ,and i think it could be useful for you .
http://neuroph.sourceforge.net/tutorials/MultiLayerPerceptron.html
http://neuroph.sourceforge.net/download.html
Hi Ahmed!
Do you mean neural networks? It isn't so clear from the question.
Anyhow, in Python there exists a brilliant package Pandas with native support for .csv import. I believe it should then be possible for you to transform data into matrices and use the Pymnet package that Tanguy Fardet proposed.
Regards, Vid :_)
For Networks I use,
- NetworkX - Python (first link)
- iGraph - R (second link)
Note: iGraph has a python version too... (third link)
From all above my favourite has been NetworkX in Python, so far. I assume your *.csv file contains edge pairs. Let us know if you need further help. Hope this helps...
https://networkx.github.io/
http://igraph.org/r/
http://igraph.org/python/
Thanks Ranga, but my question was clear. I asked about a multilayered networks framework.
- Badges
- Science topic
- Similar topics
- Computer Science and Engineering
- Programming Languages
- Python