This post was semi automatically converted from blogdown to Quarto and may contain errors. The original can be found in the archive.
Almost a year ago, I introduced my most recent network related R packages netUtils. The package is meant as a catch-all package where I gather network analytic methods that haven’t yet been implemented in R and may not deserve there own package. Between its initial release and today, I add the infamous LFR-Benchmark graphs to the package. The LFR (Lancichinetti-Fortunato-Radicchi) Benchmark is a widely used graph model for studying community structure. It generates graphs with known community assignments, allowing researchers to evaluate the performance of community detection algorithms. The model has a large set of parameters which allow to create very diverse but realistic graphs which pose tougher challenges for clustering algorithms as other models.
I implemented the algorithm in plain R and it was horribly slow. I did find an implementation in C++ in October 2022 but it took me another 8 months to finally sit down and integrate the code into the package. To obtain the sped up version you need to have netUtils with version greater than 0.8.1 (The upgraded package 0.8.2 was submitted to CRAN on 2023-6-2028).
The code below was running for minutes in base R but now, we can get an instantiation of an LFR graph in a blink of an eye.
g <- sample_lfr(n = 1000,average_degree = 15, max_degree = 50,
min_community = 20, max_community = 50,mu = 0.01)
Happy clustering!
Reuse
Citation
@online{schoch2023,
author = {Schoch, David},
title = {Fast Creation of {LFR} {Benchmark} Graphs in {R}},
date = {2023-06-28},
url = {http://blog.schochastics.net/posts/2023-06-28_fast-creation-of-lfr-benchmark-graphs-in-r/},
langid = {en}
}