Shu: visualization of high-dimensional biological pathways

• DOI: 10.1093/bioinformatics/btae140
• Publication Date: 2024-03-06T06:18:01Z
• Authors: Jorge Carrasco Mu...; Nicholas Cowie; Shannara Taylor P...; Marjan Mansouvar; Teddy Groves; Lars Keld Nielsen
• Keywords: Applications Note; Molecular Networks (q-bio.MN); FOS: Biological sciences; Quantitative Biology - Molecular Networks

Abstract

Summary Shu is a visualization tool that integrates diverse data types into a metabolic map, with a focus on supporting multiple conditions and visualizing distributions. The goal is to provide a unified platform for handling the growing volume of multi-omics data, leveraging the metabolic maps developed by the metabolic modeling community. In addition, shu offers a streamlined python API, based on the Grammar of Graphics, for easy integration with data pipelines.

Availability and implementation Freely available at https://github.com/biosustain/shu under MIT/Apache 2.0 license. Binaries are available in the release page of the repository and the web application is deployed at https://biosustain.github.io/shu.