MEANtools v1.0.0 – Initial Public Release

MEANtools is a computational pipeline that integrates multi-omics data to identify metabolites and predict biosynthetic pathways

We are excited to release MEANtools, a multi-omics data integration framework designed to correlate transcriptomics and metabolomics datasets and infer functional gene-metabolite clusters. This release features core functionalities for plant-specific studies and modular workflows, enabling flexible analysis.

Main features:

• Correlation-based integration of transcriptomics and metabolomics data.
• Inference of functional gene-metabolite clusters.
• Support for multiple correlation methods and network-based merging strategies.
• Annotated output and integration with genome/transcriptome feature files.
• Prediction of reaction steps along with reaction likelihood scores (a novel approach to add a likelihood to a predicted reaction)

Documentation and usage examples are available in https://meantools.readthedocs.io/en/latest/