This repository contains Jupyter notebooks and code for reproducing the results and figures presented in the forthcoming paper.
"RNA-Puzzles Round V: Blind predictions of 23 RNA structures"
The web portal of RNA-Puzzles Round V together with all the datasets are publicly available at https://www.rnapuzzles.org/.
Although we have only tested it in Linux (Ubuntu) and macOS, we believe that it can run seamlessly in any environment supporting the above requirements.
For macOS
python 3.10.6
matplotlib 3.6.2
numpy 1.23.3
pandas 1.5.2
seaborn 0.11.2
openpyxl 3.1.0
This repository contains the codes necessary to replicate all figures from Puzzles Round V. It includes:
The figures_reproducibility.ipynb notebook: this file can generate all main figures found in the Puzzles, with scores holding the original data for the figures. For details on how to generate data using various metrics, please refer to https://github.com/RNA-Puzzles/RNA_assessment.scores: this folder contains specific information on how the figures were produced.figures: This folder stores the output figures generated by the notebooks.
For citation and further information, please refer to the following:
Bu, F., Adam, Y., Adamiak, R.W. et al. RNA-Puzzles Round V: blind predictions of 23 RNA structures. Nat Methods (2024). https://doi.org/10.1038/s41592-024-02543-9
Thank you for your interest in our work. We hope you find the code and resources provided here useful in reproducing and building upon the findings of the RNA-Puzzles Round V.
If you encounter any issues or have questions about the code or analysis, please open an issue on the GitHub repository.