SESMotifAnalyser: framework for analysing social-ecological systems

This package contains a Python based framework for analysing social-ecological systems.

Documentation

A comprehensive documentation is available as PDF. Please contact t.seppelt-dev[ÄT]posteo.de in case of any questions.

See the examples folder for examples.

Installation

The package can be installed using pip.

pip3 install sma

Per default, dependencies required for drawing social-ecological networks will not be installed. The following command may be used to install the additional dependencies:

pip3 install sma[plots]

It has the following dependencies: Python 3, numpy, scipy, networkx, pandas.

On the R side it depends on statnet, reticulate (with Python 3).

ergm-userterms

In addition to the motif counting features written in Python, this repository contains ergm-userterms for some motifs, e.g. the 3-motifs I.C and II.C (closed and open triangles, respecting the social-ecological types of the nodes).

After downloading and compiling the package, ergm models can be fitted and the motif counting can be done directly in R:

netw <- network(...)

# first parameter: which sesType should the nodes at the points of the triangles have
# second parameter: name of nodel attribute
summary(netw ~ openTriangles(0, 'sesType'))

Integration in R and motifr

The functions in this package can to some extend be called from R using the R package reticulate. An example can be found in the examples folder. See also the corresponding section in the documentation.

Mario Angst is working on an R package which provides an interface to the SESMotifAnalyser. His project motifr can be found on Github.