MetaboAnalyst 5.0 is a web-based platform designed to bridge the gap between raw data and functional insights in global metabolomics, particularly for high-resolution mass spectrometry (HRMS) data. The platform introduces three key modules: (i) an LC–MS Spectra Processing module for automated parameter optimization and resumable analysis, (ii) a Functional Analysis module for intuitive selection and evaluation of peak groups' enrichment in metabolic pathways and metabolite sets, and (iii) a Functional Meta-Analysis module for integrating multiple global metabolomics datasets. Other new features include weighted joint-pathway analysis, data-driven network analysis, batch effect correction, and improved compound name matching. The web interface, graphics, and underlying codebase have been optimized for better performance and user experience. MetaboAnalyst 5.0 is freely available at <https://www.metaboanalyst.ca>.MetaboAnalyst 5.0 is a web-based platform designed to bridge the gap between raw data and functional insights in global metabolomics, particularly for high-resolution mass spectrometry (HRMS) data. The platform introduces three key modules: (i) an LC–MS Spectra Processing module for automated parameter optimization and resumable analysis, (ii) a Functional Analysis module for intuitive selection and evaluation of peak groups' enrichment in metabolic pathways and metabolite sets, and (iii) a Functional Meta-Analysis module for integrating multiple global metabolomics datasets. Other new features include weighted joint-pathway analysis, data-driven network analysis, batch effect correction, and improved compound name matching. The web interface, graphics, and underlying codebase have been optimized for better performance and user experience. MetaboAnalyst 5.0 is freely available at <https://www.metaboanalyst.ca>.