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README.Rmd
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README.Rmd
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---
output: github_document
---
```{r setup, echo = FALSE}
knitr::opts_chunk$set(collapse = TRUE, comment = "#>", fig.path = "README-")
knitr::opts_chunk$set(fig.path = "man/figures/")
```
# Mediterranean landscape simulation <a href="https://emf-creaf.github.io/medfateland/"><img src="man/figures/logo.png" align="right" height="139" alt="medfateland website" /></a>
[](https://cran.r-project.org/package=medfateland)
[](https://cran.rstudio.com/web/packages/medfateland/index.html)
[](https://github.com/emf-creaf/medfateland/actions)
## Introduction
The R package **medfateland** has been designed to extend the capabilities of package **medfate** to a spatially-explicit context. It allows running the stand-level models available in medfate on points and cells within landscape or region, including the possibility of parallelization. Additionally, medfateland allows considering seed dispersal and lateral water transfer processes in forested watersheds. Hence, medfateland can be used as a tool for eco-hydrological applications.
## Package installation
Since both packages evolve together, installing **medfateland** normally requires an up-to-date version of **medfate**.
The package is not available from CRAN because it is still under active development. Beta versions of package **medfateland** can be installed from GitHub as follows:
```{r installation, eval = FALSE}
remotes::install_github("emf-creaf/medfateland")
```
## Documentation
A number of *vignettes* illustrate how to initialize inputs and run simulation models in **medfateland**. These can be found at the package [website](https://emf-creaf.github.io/medfateland/).
The user is also advised to read articles included in the [website](https://emf-creaf.github.io/medfate/) of package **medfate**.
A complete documentation of both packages, including a *reference book*, can be found at https://emf-creaf.github.io/medfatebook/index.html.
## Companion R packages
The modelling tools included in **medfate** and **medfateland** are closely developed with another package:
+ Package [**traits4models**](https://emf-creaf.github.io/traits4models) provides functions to help creating species parameter inputs for process-based models such as those in for **medfate** and **medfateland** functions [*under development*].
Two other R 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.
```{r, out.width='80%', fig.align="center", echo=FALSE}
knitr::include_graphics("man/figures/packages.png")
```
## Authorship
Package **medfateland** is developed and maintained by the [*Ecosystem Modelling Facility*](https://emf.creaf.cat) unit at [*CREAF*](https://www.creaf.cat/) (in Spain), in close collaboration with researchers from [*URFM-INRAE*](https://www6.paca.inrae.fr/ecologie_des_forets_mediterraneennes/) (in France) and [*CTFC*](https://www.ctfc.cat/) (in Spain).
```{r, out.width='60%', fig.align="center", echo=FALSE}
knitr::include_graphics("man/figures/institution_logos.png")
```
## Funding
+ **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.