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---
output: github_document
---
<!-- README.md is generated from README.Rmd. Please edit that file -->
```{r, include = FALSE}
knitr::opts_chunk$set(collapse = TRUE,
comment = "#>",
fig.path = "man/figures/",
out.width = "100%")
```
# Agri-TE
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Research Compendium of the
[FRB-CESAB](https://www.fondationbiodiversite.fr/en/about-the-foundation/le-cesab/)
research group
[Agri-TE](https://www.fondationbiodiversite.fr/en/the-frb-in-action/programs-and-projects/le-cesab/agri-te/).
This repository contains different functions to retrieve the DOI, metadata and full text of a raw reference
citation using the [Web of Science Lite API](https://developer.clarivate.com/apis/woslite)
(and the R package [`rwoslite`](https://github.com/frbcesab/rwoslite)) and the
[CrossRef API](https://www.crossref.org/documentation/retrieve-metadata/rest-api/)
(and the R package [`rcrossref`](https://cran.r-project.org/package=rcrossref)).
### Content
This repository is structured as follow:
- [`data/`](https://github.com/frbcesab/agrite/tree/master/data):
contains all raw data required to perform analyses
- [`analyses/`](https://github.com/frbcesab/agrite/tree/master/analyses/):
contains R scripts to run each step of the workflow
- [`outputs/`](https://github.com/frbcesab/agrite/tree/master/outputs):
contains all the results created during the workflow
- [`R/`](https://github.com/frbcesab/agrite/tree/master/R):
contains R functions developed especially for this project
- [`man/`](https://github.com/frbcesab/agrite/tree/master/man):
contains help files of R functions
- [`DESCRIPTION`](https://github.com/frbcesab/agrite/tree/master/DESCRIPTION):
contains project metadata (author, date, dependencies, etc.)
- [`make.R`](https://github.com/frbcesab/agrite/tree/master/make.R):
main R script to run the entire project by calling each R script stored in the `analyses/` folder
### Usage
Clone the repository, open RStudio, create a new project inside this folder
and open the `make.R`.
### How to cite
Please cite this compendium as:
> Casajus N. & Bellouin D. (2023) agrite: A Toolbox to Retrieve DOI, Metadata, and Full Text from a Raw Citation.
### Notes
- All required packages, listed in the `DESCRIPTION` file, will be installed (if necessary)
- All required packages and R functions will be loaded
- Some analyses listed in the `make.R` might take time