pyRNAither 0.0.1

Python reimplementation of RNAither for high-throughput iRNA screening analysis

pyRNAither

Python reimplementation of RNAither for high-throughput iRNA screening analysis

📖 Overview

pyRNAither is a powerful Python package for analyzing high-throughput RNA interference (RNAi) screening data. It provides a comprehensive suite of tools for quality control, normalization, statistical analysis, and visualization of RNAi screening results.

✨ Features

• Data Processing: Efficient handling of large-scale RNAi screening data
• Quality Control: Comprehensive QC metrics and visualization
• Normalization: Multiple normalization methods for RNAi data
• Statistical Analysis: Advanced statistical tests for hit identification
• Visualization: Publication-quality plots and interactive visualizations
• Modular Design: Easy to extend and customize for specific needs

🚀 Installation

Using pip

pip install pyRNAither

From source

# Clone the repository
git clone https://github.com/Takshan/pyRNAither.git
cd pyRNAither

# Install in development mode
pip install -e .

📚 Documentation

For detailed documentation, including API reference and examples, please visit our documentation.

🎯 Quick Start

Basic Usage

import pyrnaither as prt

#load data

Example Analysis Pipeline

import pyrnaither as prt
from pyrnaither import stats, visualization

# Load and preprocess data

📊 Example Plots

Quality Control Metrics

Volcano Plot

Heatmap

📄 License

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

📧 Contact

For questions or support, please contact:

• Rahul Brahma: [e-mail]
• Yasas Wijesekara: [e-mail]

📚 References

1. Rieber N, Knapp B, Eils R, Kaderali L. RNAither, an automated pipeline for the statistical analysis of high-throughput RNAi screens. Bioinformatics. 2009 Mar 1;25(5):678-9. doi: 10.1093/bioinformatics/btp014. Epub 2009 Jan 25. PMID: 19168909.

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Made with ❤️ by the pyRNAither Team