🎼🧬 lightmotif-io

Parser implementations of several formats for the lightmotif crate..

🗺️ Overview

Position-specific scoring matrices are relatively small and easy to exchange as count matrices, or sometimes directly as log-odds, but different formats have been developed independently to accomodate the associated metadata by different databases. This crate provides convenience parsers to load lightmotif matrices from several PSSM file formats, including:

• TRANSFAC-formatted records, with associated metadata.

• JASPAR count matrices (in JASPAR 2016 bracketed format or raw format) with their record header.

• UniPROBE frequency matrices with their record header.

• MEME minimal records with their metadata, background probabilities, and frequency matrices.

💭 Feedback

⚠️ Issue Tracker

Found a bug ? Have an enhancement request ? Head over to the GitHub issue tracker if you need to report or ask something. If you are filing in on a bug, please include as much information as you can about the issue, and try to recreate the same bug in a simple, easily reproducible situation.

📋 Changelog

This project adheres to Semantic Versioning and provides a changelog in the Keep a Changelog format.

⚖️ License

This library is provided under the open-source MIT license.

This project was developed by Martin Larralde during his PhD project at the European Molecular Biology Laboratory in the Zeller team.