AlleleTools: documentation

AlleleTools is a CLI (Command Line Interface) tool for researchers working with allele data from complex genes (e.g., HLA, KIR). It aims to provide a comprehensive suite of functionalities for data conversion, quality control, statistical analysis, and visualization.

CLI modules

The commands are sorted in categories, referred to as modules:

1. Format: a group commands that convert allele data between different file formats. Including vcf, csv, our own format .alt (from allele table) and others.

2. Plot: some commands to visualize allele data, specially from external sources.

3. Test: perform statistical analysis on the allele dataset.

API Documentation

For contributors and developers, an API reference is available.