📚 Tidy_bib

A modular and reproducible pipeline for cleaning and organizing bibliographic data using R.

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🎯 Purpose

Tidy_bib automates the preprocessing of .bib files exported from databases like Web of Science and Scopus, preparing the data for analysis in biblioshiny or for enrichment via APIs (Crossref, OpenAlex, ROR).

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🗂️ Project Structure

Tidy_bib/
├── R/               # Function scripts (e.g., safe_convert2df.R)
├── data/            # Raw files (.bib)
├── output/          # Cleaned data, spreadsheets, logs
├── tests/           # Unit tests with testthat
├── config.yaml      # Configuration file
├── README.Rmd       # This file
├── .gitignore       # Files to ignore in version control

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⚙️ How to Run the Pipeline

1. Install required packages:

install.packages(c("bibliometrix", "yaml", "here", "fs", "dplyr"))

2. Run the pipeline:

source("R/convert_bib_files_to_df.R")
source("R/safe_convert2df.R")
source("run_pipeline.R")

initialize_pipeline("config.yaml")

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🧪 Testing

This project uses testthat. To run the tests:

devtools::test()

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👥 Contributing

1. Fork the repository
2. Create a branch: git checkout -b new-feature
3. Commit your changes: git commit -m "feat: add new feature"
4. Push to your branch: git push origin new-feature
5. Open a pull request

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🔒 License

This project is licensed under the MIT License. See the LICENSE file for details.

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📌 Citation

If you use this project, please cite as:

Arraes, D. (2025). Tidy_bib: A modular bibliographic cleaning pipeline in R. https://github.com/danielbrazil303/Tidy_bib