Automated workflow for incorporation and evaluation of data uncertainty in ecological networks

The goal of autoLIMR is to facilitate the inclusion of data uncertainty in ecological models. autoLIMR does this by:

1. Automated construction of input files from network data, directly compatible with R packages LIM and limSolve

2. Calculation of multiple plausible network configuration using linear inverse modelling and Markov Chain Monte Carlo (LIM-MCMC), and

3. Evaluation of model quality using several visual and statistical MCMC convergence diagnostics.

Article

You can find the published article here. Please use this citation:

Gerber, G., Brooker, B., Scharler, U.M., 2023. Automated workflow for incorporation and evaluation of data uncertainty in ecological networks with autoLIMR. Ecol. Inform. 78, 102375. https://doi.org/10.1016/j.ecoinf.2023.102375

Installation

You can install the latest version of autoLIMR from GitHub with:

# install.packages("devtools")
devtools::install_github("gemmagerber/autoLIMR")