I’ve been playing with the igraph package a bit lately (see previous post HERE) and wanted to approach a problem I once visited in the past. The basic gist of the problem is this: Students in a class are asked … Continue reading →
Posts Tagged ‘ igraph ’
igraph and SNA: an amateur’s dabbling
igraph and structured text exploration
I am in the slow process of developing a package to bridge structured text formats (i.e. classroom transcripts) with the tons of great R packages that visualize and analyze quantitative data (If you care to play with a rough build … Continue reading →
What does this package look like?
In this post, I give a very simple trick to understand the way a package is organized, which functions are included in and how these functions depend from each others. The idea has been brought by one of my student, Soraya, who is currently working in a very hostile environment, surrounded by true geeks. However,
New food web dataset
So, there is a new food web dataset out that was put in Ecological Archives here, and I thought I would play with it. The food web is from Otago Harbour, an intertidal mudflat ecosystem in New Zealand. The web contains 180 nodes, with 1,924 links. Fu...
basic ggplot2 network graphs – ver2
I posted last week a simple function to plot networks using ggplot2 package. Here is version 2. I still need to work on figuring out efficient vertex placement.Changes in version 2:-You have one of three options: use an igraph object, a matrix, or a da...
basic ggplot2 network graphs
I have been looking around on the web and have not found anything yet related to using ggplot2 for making graphs/networks. I put together a few functions to make very simple graphs. The bipartite function especially is not ideal, as of course we only w...
Generating graphs of retweets and @-messages on Twitter using R and Gephi
After recently discovering the excellent methods section on mappingonlinepublics.net, I decided it was time to document my own approach to Twitter data. I’ve been messing around with R and igraph for a while, but it wasn’t until I discovered Gephi that things really moved forward. R/igraph are great for preprocessing the data (not sure how
Installing ‘intergraph’ package
After some e-mails I decided to put together a bit more detailed instruction how to install the ‘intergraph’ package together with the namespaced version of the ‘network’ package. See here. There seemed to be some problems with downloading the namespaced ‘network’ from my webstite (thanks Neil!). File permissions were set incorrectly. I fixed that and 
Namespaces and name conflicts
R packages ‘igraph’ and ‘network’ are good examples of two R packages providing similar but complementary functionalities for which there are a lot of name conflicts. As for now the ‘igraph’ package has a namespace while the ‘network’ package (version 1.4-1) does not. This became an issue when I was working on the ‘intergraph‘ package. 
From igraph to network and back again
In an effort to achieve this (last paragraph), I created a couple of functions to coerce networks as ‘igraph’ objects to networks as ‘network’ objects and vice versa. I wrapped them into a package called ‘intergraph’ which I just uploaded to my personal miniCRAN. Please mind, this is still an experimental version! Might be bug-infested. 
Zero Inflated Models and Generalized Linear Mixed Models with R.
Zuur, Saveliev, Ieno (2012).
