intronator 0.1.1

A Python package for comprehensive splice site analysis and simulation

Intronator

A Python package for intron analysis with splice site prediction capabilities.

Features

• SpliceAI integration for splice site prediction
• Pangolin model support for enhanced predictions
• seqmat compatibility for sequence analysis
• Python 3.10+ support

Installation

Basic Installation

pip install intronator

External Dependencies

The package requires SpliceAI and Pangolin models which must be installed separately:

SpliceAI

pip install spliceai

Pangolin

pip install git+https://github.com/tkzeng/Pangolin.git

Complete Installation (with external dependencies)

pip install intronator[external]

Quick Start

import intronator

# Check package status
print(intronator.hello_intronator())
print(intronator.check_seqmat_compatibility())
print(intronator.get_model_status())

Requirements

• Python >= 3.10
• seqmat
• torch >= 1.10.0
• tensorflow >= 2.8.0
• SpliceAI (install separately)
• Pangolin (install separately)

Notes

• SpliceAI and Pangolin models will be automatically loaded when the package is imported
• Model loading may take some time on first import
• GPU acceleration is automatically detected and used when available