Command-Line Interface (CLI)

The rna-score CLI provides a comprehensive toolkit for downloading, processing, and scoring RNA 3D structures using statistical models of interatomic distances.

• CLI Usage

• Implementation Details

Installation

Install the package using git, as mentioned in main page’s installation instructions:

pip install git+https://github.com/raysas/structural-RNA-project.git

or clone it and install:

git clone https://github.com/raysas/structural-RNA-project.git
cd structural-RNA-project
pip install -r requirements.txt
pip install -e .

Quick Start

# -- download RNA structures
rna-score access -n 50 --rna-only -o rna_structures

# -- extract distances
rna-score extract --folder rna_structures/pdb --out-dir distances

# -- train scoring tables
rna-score train --input-dir distances --output-dir training_output

# -- score a structure
rna-score score --pdb structure.pdb --tables training_output --output scores.csv

# -- visualize scoring profiles
rna-score plot --input-dir training_output --output-dir plots --combined