infomapecology: infomapecology: A package for running Infomap, inspired by...

In Ecological-Complexity-Lab/infomap_ecology_package: Community Detection using Infomap, Inspired by Ecological Networks

infomapecology: A package for running Infomap, inspired by ecological networks

Description

The package contains functions that prepare monolayer and multilayer networks for analysis with Infomap, run Infomap from within R and parse the results back to R. Also includes standardized objects to store and further analyze monolayer and multilayer networks. The package is inspired by analysis of ecological networks but is suitable for other areas of research as well.

Details

We use Infomap as a stand-alone file. Future versions will integrate Infomap directly into R. Complete instructions on how to download, install and use Infomap can be found in https://www.mapequation.org. The best practice is to compile Infomap under the file name Infomap and place it in the same working folder in which the R code is run. See details in https://ecological-complexity-lab.github.io/infomap_ecology_package/installation

The package also includes several data sets of ecological networks.

Ideas/requests for features are welcome (open an issue https://github.com/Ecological-Complexity-Lab/infomap_ecology_package/issues).

Author(s)

Shai Pilosof

References

Farage C, Edler D, Eklöf A, Rosvall M, Pilosof S. Identifying flow modules in ecological networks using Infomap. Methods in Ecology and Evolution 2021. doi:10.1111/2041‐210X.13569

Ecological-Complexity-Lab/infomap_ecology_package documentation built on June 6, 2024, 5:28 a.m.