Metabolomics Navigator Tools, strategies & workflow guidance for metabolomics

Statistical analysis

MetaboShiny

Explore mass-spectrometry metabolomics tables through an R/Shiny interface.

LC-MSR packageWeb applicationSource available with restrictions
Access toolSuggest an update

Overview

MetaboShiny combines filtering, normalization, statistical exploration and database-assisted annotation, with local project and database management.

What can this tool do?

Univariate statisticsMultivariate statistics

Common uses

  • Explore feature abundances and sample groups interactively.
  • Generate mass-compatible compound candidates from selected databases.

Scientific fit

Primary function

Statistical analysis

Data compatibility

Inputs

Feature or peak table, Sample metadata

Outputs

Statistical results, Human-readable report

Input formats

Other, Feature peak lists and sample metadata

Output formats

Other, Saved analysis sessions, tables and plots

Scope and considerations

Designed for

  • Explore feature abundances and sample groups interactively.

Not designed for

  • Treating m/z database matches as definitive compound identities.

Important requirements

  • Feature tables, sample metadata and a configured R or container installation.

Considerations

  • Database snapshots require management; preserve normalization choices and check installation instructions against current dependencies.

Access and documentation

Primary access

Public research software and container instructions; database licensing is separate.

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.

  1. Wolthuis JC, Magnusdottir S, Pras-Raves M, et al. MetaboShiny: interactive analysis and metabolite annotation of mass spectrometry-based metabolomics data. Metabolomics 16, 99 (2020). doi:10.1007/s11306-020-01717-8

Related tools

MetaboAnalystComplementary to · A web platform and associated R package for metabolomics data processing, statistical analysis, visualization, functional interpretation, and multi-omics integration.

Entry history

Changes to this catalogue entry, not the tool's software release history. Acceptance and editorial review are separate.

  1. 2026-09-08 · Entry update

    Audit core publications across existing tools

    View change · Entry at this revision
  2. 2026-09-07 · First committed entry

    Add 50 documented metabolomics resources

    View change · Entry at this revision

Full GitHub history