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Functions to simulate Mediterranean forest functioning and dynamics using cohort-based description of vegetation
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README.md

medfate - Mediterranean forest functioning

Introduction

Package medfate is designed to assist forest scientists to simulate forest functioning and dynamics, using cohort-based description of forest stands. The package provides functions to simulate the following processes:

  • Soil water balance (De Cáceres et al. 2015)
  • Plant hydraulics, transpiration and photosynthesis
  • Plant growth

The models are parameterized for species of the Mediterranean region (particularly for Catalonia, NE Spain), but forests with different composition could be modelled with different parameter sets.

Package installation

Package medfate can be found at CRAN, where it is updated every few months. Users can also download and install the latest stable versions GitHub as follows (required package devtools should be installed/updated first):

devtools::install_github("vegmod/medfate")

Additionally, users can have help to run package functions directly as package vignettes, by forcing their inclusion in installation:

devtools::install_github("vegmod/medfate", 
                         build_opts = c("--no-resave-data", "--no-manual"))

Documentation

  • The package installation includes a number of vignettes that illustrate how to run simulation models in medfate.

  • Additional documentation of the package, including a reference book, can be found at https://vegmod.github.io/software/medfate.

References

  • De Cáceres M, Martínez-Vilalta J, Coll L, Llorens P, Casals P, Poyatos R, Pausas JG, Brotons L. (2015) Coupling a water balance model with forest inventory data to predict drought stress: the role of forest structural changes vs. climate changes. Agricultural and Forest Meteorology 213: 77-90 (doi:10.1016/j.agrformet.2015.06.012).
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