README.Rmd

---
output: github_document
---

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# IASDT.R: Modelling the distribution of invasive alien plant species in Europe

```{r}
#| include = FALSE
knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>",
  fig.path = "man/figures/README-",
  out.width = "100%")

.Today <- paste0("Last update: ", lubridate::today())
```

## Overview

[`IASDT.R`](https://biodt.github.io/IASDT.R) supports the invasive alien species (IAS) Digital Twin (`IASDT`), as part of the EU-funded
<a href="https://biodt.eu/" target="_blank">BioDT</a> project. This R package provides functions for processing input data (biotic and abiotic) and modelling the distribution of naturalised alien plant species (NAPS) across Europe using joint species distribution models.

- More information on the `BioDT` project can be found at this <a href="https://biodt.eu/" target="_blank">link</a>.
- For an overview on the `IASDT`, see Khan, El-Gabbas, et al. <a href="https://doi.org/10.3897/rio.10.e124579" target="_blank"><img src="https://img.shields.io/badge/DOI:-10.3897/rio.10.e124579-blue" alt="DOI: 10.3897/rio.10.e124579"/></a>.
- Documentation of the package functions can be found <a href="https://biodt.github.io/IASDT.R/reference/index.html" target="_blank">here</a>.
- Click <a href="https://github.com/BioDT/uc-ias-workflows">here</a> for the workflow of the `IASDT`.
- The package also depends on <a href="https://elgabbas.github.io/ecokit/">ecokit</a> for general ecological data analysis and visualisation.

<center><img src="https://git.ufz.de/uploads/-/system/group/avatar/4444/biodt.png" alt="BioDT_logo" width="400"> </center>

<hr>

## Installing the package

To install the most-recent development version of the package, use the following command:

```{r, eval=FALSE}
remotes::install_github(repo = "BioDT/IASDT.R", dependencies = TRUE)
```

To update the package, use:

```{r, eval=FALSE}
remotes::update_packages("IASDT.R", dependencies = TRUE)
```

If you are using renv, update the package with:

```{r, eval=FALSE}
renv::update("IASDT.R", prompt = FALSE)
```

<hr>

## Contribute to the package

Contributions, suggestions, and bug reports are welcome. Please make changes on a new branch and submit a pull request or make an issue [here](https://github.com/BioDT/IASDT.R/issues).

> For questions, please get in touch with [me](https://elgabbas.netlify.app/) at `elgabbas[at]outlook[dot]com`

<hr>

## Citation

If you use the `IASDT.R` package, please cite it as: <a href="https://doi.org/10.5281/zenodo.14834384" target="_blank"><img role="button" tabindex="0" id="modal-858828210-trigger" aria-controls="modal-858828210" aria-expanded="false" class="doi-modal-trigger block m-0" src="https://zenodo.org/badge/DOI/10.5281/zenodo.14834384.svg" alt="DOI: 10.5281/zenodo.14834384"/></a>

> El-Gabbas, A. (2025). **IASDT.R: Modelling the distribution of invasive alien plant species in Europe**. <a href="https://doi.org/10.5281/zenodo.14834384" target="_blank">10.5281/zenodo.14834384</a>, R package version 0.1.05; <a href="https://github.com/BioDT/IASDT.R" target="_blank">https://github.com/BioDT/IASDT.R</a>; <a href="https://biodt.eu" target="_blank">https://biodt.eu</a>.

`r kableExtra::text_spec(.Today, color = "grey")`