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bioRxiv · 10.1101/2025.06.15.659783

Protocol for GDT, Gene Dictionary Tool, to create and implement a gene dictionary across annotated genomes

Dupin, B.·Lima, M. S.·Paschoal, A. R.·Smith, D. R.
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Abstract

The Gene Dictionary Tool is a protocol for the creation and implementation of gene dictionaries across annotated genomes. Through a Python CLI (Command Line Interface), the user identifies what annotations are missing in the inputted dictionary. Via two Jupyter Notebooks, the user builds a gene dictionary based on attributes retrieved from inputted GFF3 files. The final output, a .gdict file, is Findable, Accessible, Interoperable, and Reusable (FAIR). We showcase GDTs functionalities by creating a gene dictionary for fungal mitochondrial genomes.

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Dupin, B., Lima, M. S., Paschoal, A. R., Smith, D. R.. 2025-06-16. Protocol for GDT, Gene Dictionary Tool, to create and implement a gene dictionary across annotated genomes. https://doi.org/10.1101/2025.06.15.659783

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