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

medfate 최신버젼 다운로드

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# Mediterranean forest simulation <a href="https://emf-creaf.github.io/medfate/"><img src="man/figures/logo.png" align="right" height="139" alt="medfate website" /></a>

[![CRAN_Status_Badge](https://www.r-pkg.org/badges/version/medfate)](https://cran.r-project.org/package=medfate)
[![](https://cranlogs.r-pkg.org/badges/medfate)](https://cran.rstudio.com/web/packages/medfate/index.html)
[![R-CMD-check](https://github.com/emf-creaf/medfate/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/emf-creaf/medfate/actions)

## 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 (De Cáceres et
  al. 2021, Ruffault et al. 2022)
- Carbon balance, plant growth, senescence and mortality (De Cáceres et
  al. 2023)
- Forest dynamics, including recruitment and management (De Cáceres et
  al. 2023)

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

## Package installation

Package **medfate** can be found at
[CRAN](https://CRAN.R-project.org/package=medfate), where it is updated
every few months. Installation from CRAN can be done via:

``` r
install.packages("medfate")
```

Users can also download and install the latest stable versions GitHub as
follows (required package `remotes` should be installed/updated first):

``` r
remotes::install_github("emf-creaf/medfate")
```

## Documentation and training

- A number of *vignettes* illustrate how to run simulation models in
  **medfate**. These, and additional articles regarding parameter
  estimation and model evaluation can be found
  [here](https://emf-creaf.github.io/medfate/articles/).

- A complete documentation of the models included in the package can be
  found in [medfate’s reference
  book](https://emf-creaf.github.io/medfatebook/index.html).

- Presentation slides on a course devoted to process-based forest
  modelling with **medfate** can be found
  [here](https://emf.creaf.cat/training/medfate_course/).

## Companion R packages

During the development of **medfate** some functions were originally
placed there but then moved to more specialized packages which evolve
together with **medfate**:

- Package [**medfateland**](https://emf-creaf.github.io/medfateland)
  extends **medfate** by allowing simulations to be performed in a
  spatially explicit context.
- Package [**traits4models**](https://emf-creaf.github.io/traits4models)
  provides functions to help creating species parameter inputs for
  **medfate** and **medfateland** simulation functions.

Two other packages complete the simulation framework, but can be used
for many other purposes beyond forest modelling:

- Package [**meteoland**](https://emf-creaf.github.io/meteoland) allows
  generating daily weather input for simulation models in **medfate**
  and **medfateland**. Package **meteoland** is a dependency for
  **medfate** and **medfateland**, but can be used independently to
  obtain daily weather data.
- Package [**forestables**](https://emf-creaf.github.io/forestables)
  allows reading and harmonizing forest inventory data to a common data
  structure. Initialization workflows in **medfateland** can use data
  from **forestables**, but the data structures of the package can be
  used for many studies beyond modelling.

The relationships between the five packages are illustrated in the
figure below, where black arrows indicate package dependencies and gray
arrows indicate model parameter or data provision.

## Authorship

Package **medfate** is developed and maintained by the [*Ecosystem
Modelling Facility*](https://emf.creaf.cat) unit at
[*CREAF*](https://www.creaf.cat/) with funding from
[*CSIC*](https://www.csic.es/), in close collaboration with researchers
from other institutions such as
[*URFM-INRAE*](https://www6.paca.inrae.fr/ecologie_des_forets_mediterraneennes/)
and [*CTFC*](https://www.ctfc.cat/).

## Funding

- **Fellowship**: *Ramon y Cajal* research fellowship to M. De Cáceres.
  **Financial Entity**: Ministerio de Economía y Competitividad (
  RYC-2012-11109). **Duration from**: 01/01/2013 **to**: 31/12/2018.
- **Research project**: Forecasting of ecosystem services on forests:
  impacts and adaptation to extreme climate events (FORESTCAST).
  **Financial Entity**: Ministerio de Economia y Competitividad
  (CGL2014-59742-C2-2-R). **Duration from**: 01/01/2015 **to**:
  31/12/2017. **PI**: Lluís Brotons/Miquel De Cáceres.
- **Research project**: Modeling plant water use and drought resistance
  strategies across scales (DRESS). **Financial Entity**: Ministerio de
  Economia y Competitividad (CGL2017-89149-C2-2-R). **Duration from**:
  01/01/2018 **to**: 31/12/2021. **PI**: Miquel De Cáceres.
- **Research project**: Boosting process-based models to project forest
  dynamics and associated ecosystem services at stand-to-regional scales
  (BOMFORES). **Financial Entity**: Ministerio de Ciencia e Innovación
  (PID2021-126679OB-I00). **Duration from**: 01/09/2022 **to**:
  31/08/2024. **PI**: Miquel De Cáceres.
- **Research project**: Improving the modelling of key forest dynamic
  processes to forecast long-term changes in Mediterranean forests under
  climate change (IMPROMED). **Financial Entity**: Ministerio de Ciencia
  e Innovación (PID2023-152644NB-I00). **Duration from**: 01/09/2024
  **to**: 31/08/2027. **PI**: Miquel De Cáceres/Josep Mª Espelta.

## 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
  (<https://doi.org/10.1016/j.agrformet.2015.06.012>).

- De Cáceres M, Mencuccini M, Martin-StPaul N, Limousin JM, Coll L,
  Poyatos R, Cabon A, Granda V, Forner A, Valladares F, Martínez-Vilalta
  J (2021) Unravelling the effect of species mixing on water use and
  drought stress in holm oak forests: a modelling approach. Agricultural
  and Forest Meteorology 296
  (<https://doi.org/10.1016/j.agrformet.2020.108233>).

- Ruffault J, Pimont F, Cochard H, Dupuy JL, Martin-StPaul N (2022)
  SurEau-Ecos v2.0: a trait-based plant hydraulics model for simulations
  of plant water status and drought-induced mortality at the ecosystem
  level. Geoscientific Model Development 15, 5593-5626
  (<https://doi.org/10.5194/gmd-15-5593-2022>).

- De Cáceres M, Molowny-Horas R, Cabon A, Martínez-Vilalta J, Mencuccini
  M, García-Valdés R, Nadal-Sala D, Sabaté S, Martin-StPaul N, Morin X,
  D’Adamo F, Batllori E, Améztegui A (2023) MEDFATE 2.9.3: A
  trait-enabled model to simulate Mediterranean forest function and
  dynamics at regional scales. Geoscientific Model Development 16,
  3165–3201 (<https://doi.org/10.5194/gmd-16-3165-2023>).

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