README.md

sortscore

sortscore is a Python package for Sort-seq variant analysis, including scoring, normalization, and visualization.

Quick Start

python -m venv .venv
source .venv/bin/activate
pip install sortscore

Run a standard variant scoring analysis:

sortscore score -n EXPERIMENT_NAME -e path/to/experiment_setup.csv -c path/to/config.json

If the sortscore command is not on your PATH, run:

python -m sortscore score -n EXPERIMENT_NAME -e path/to/experiment_setup.csv -c path/to/config.json

Example Heatmaps

Single Experiment Scoring Heatmap

Batch Normalization Heatmap

Documentation

• Installation
• Usage
• CLI Arguments
• Visualization
• Batch Processing
• Troubleshooting
• Contributing

Demo

• Single Experiment Scoring Notebook Demo
• Batch Normalization Notebook Demo
• Comparison of Ordinal vs MFI weighted scores

Example Config Files

• Example Config
• Example Experiment Setup
• Example Batch Config

Integrations

• Lilace Demo