SoilR: Models of Soil Organic Matter Decomposition

SoilR is a modeling framework that contains a library of functions and tools for modeling soil organic matter decomposition under the R environment for computing (Sierra et al., 2012; Sierra et al., 2014). It implements a variety of model structures and tools to represent carbon storage and release from soil organic matter. In SoilR, organic matter decomposition is represented as a non-linear system of ordinary differential equations that generalizes the structure of most compartment-based decomposition models.

You can obtain the latest version of SoilR from our GitHub repository . To install, follow the instructions on the Workflow below about first steps.

SoilR Workflows

In this site you will find useful information on how to run SoilR and perform analyses useful for your research. Each Workflow is writen in the form of blogpost and contains different examples for performing different analyses with SoilR. You can ask questions using the commenting platform and get feedback from a larger community.

Workflows by date
Introduction to radiocarbon models Nov 24, 2023
Understanding input fluxes in SoilR Sep 20, 2023
Nonlinear microbial explicit models Apr 29, 2016
Temperature and moisture modifiers Apr 14, 2016
Bind pre-, post-bomb, and forecast atmospheric radiocarbon curves Dec 31, 2015
Multiple-pool radiocarbon models Dec 30, 2015
Ages and transit times in linear models Dec 30, 2015
Identify kinetic SOM fractions with incubation data Dec 9, 2015
Run the RothC model for a site Nov 19, 2015
Run multiple-pool models Nov 13, 2015
Olson's 1963 model Nov 11, 2015
Run a one-pool model Oct 6, 2015
First steps with R and SoilR Sep 25, 2015

Training

Occasionally, we offer training on how to use SoilR at conferences or workshops. The next SoilR training session will take place during September 12th and 13th, 2022. Please get in contact with Carlos A. Sierra if you are interested in participating.

References

  1. Sierra, C. A., Müller, M., & Trumbore, S. E. (2014). Modeling radiocarbon dynamics in soils: SoilR version 1.1. Geoscientific Model Development, 7(5), 1919–1931. https://doi.org/10.5194/gmd-7-1919-2014
  2. Sierra, C. A., Müller, M., & Trumbore, S. E. (2012). Models of soil organic matter decomposition: the SoilR package, version 1.0. Geosci. Model Dev., 5(4), 1045–1060. https://doi.org/10.5194/gmd-5-1045-2012