Overview
MetaboAnalystR provides a programmable counterpart to the MetaboAnalyst ecosystem. Version 4 integrates LC-MS processing, annotation and downstream analysis.
What can this tool do?
Common uses
- Reproduce and extend analyses in R scripts.
- Connect processed metabolite tables to statistical and pathway workflows.
Scientific fit
Primary function
Statistical analysis
Data compatibility
Inputs
Feature or peak table, Sample metadata
Outputs
Statistical results, Human-readable report
Input formats
Other, R matrices and module-specific input files
Output formats
Other, R analysis objects, tables and figures
Scope and considerations
Designed for
- Reproduce and extend analyses in R scripts.
Not designed for
- Replacing experimental validation of biomarkers or pathway mechanisms.
Important requirements
- R and module-specific dependencies; raw-data workflows need additional computing and reference resources.
Considerations
- Keep package versions, parameters and database releases with the analysis. Local and web implementations can differ.
Access and documentation
Open-source R framework; external databases and services have separate terms.
Evidence and review
Documentation-based editorial review on 7 September 2026. Scope and limitations summarize the linked official sources; software execution and developer verification were not assessed.
Core publications
Resource papers, direct updates and tool-specific methods. Selection policy.
- Pang Z, Xu L, Viau C, et al. MetaboAnalystR 4.0: a unified LC-MS workflow for global metabolomics. Nat Commun 15, 3675 (2024). doi:10.1038/s41467-024-48009-6
Related tools
Entry history
Changes to this catalogue entry, not the tool's software release history. Acceptance and editorial review are separate.
- 2026-09-08 · Entry update
Audit core publications across existing tools
View change · Entry at this revision - 2026-09-07 · First committed entry
Add 50 documented metabolomics resources
View change · Entry at this revision