Metabolomics Navigator Tools, strategies & workflow guidance for metabolomics

Visualization and reporting

GNPS Dashboard

A browser-based interactive viewer for raw and public mass-spectrometry data, chromatograms, spectra, quantitative traces, and GNPS-associated datasets without requiring local analysis software.

Multiple analytical platformsUntargeted metabolomicsTargeted metabolomicsMetabolite profilingWeb application
Access toolSuggest an update

Overview

GNPS Dashboard provides interactive browser-based exploration of mass-spectrometry files and public repository data. It can render chromatographic and spectral views, inspect individual scans, generate TIC/XIC-style traces, support targeted/SRM-style visualization, and link directly from GNPS analyses and public datasets. It also helps users identify and share spectra through Universal Spectrum Identifiers and connect raw-data inspection with downstream GNPS2 workflows.

What can this tool do?

Interactive dashboardChromatogram buildingProvenance tracking

Common uses

  • Interactively inspect raw/public LC-MS and other supported MS files in a browser.
  • Visualize chromatograms, extracted ion traces, spectra, and targeted transitions without installing local software.
  • Navigate from public repository files or GNPS2 analyses to individual scans and shareable spectrum identifiers.
  • Inspect chromatographic peaks and scan-level evidence underlying an annotation or unexpected sample signal.

Scientific fit

Primary function

Visualization and reporting

Other functions

Data management and sharing, Preprocessing and feature extraction

Analysis types

Untargeted metabolomics, Targeted metabolomics, Metabolite profiling

MS level

MS1, MS/MS

Acquisition

Full-scan MS, Data-dependent acquisition (DDA), Data-independent acquisition (DIA), PRM or MRM/SRM, General or unspecified acquisition

Ion mobility

Ion mobility supported

Data compatibility

Inputs

Raw instrument data, Mass spectra

Outputs

Mass spectra, Human-readable report

Input formats

mzML, mzXML

Output formats

JSON

Scope and considerations

Designed for

  • Rapid visual inspection and collaborative exploration of raw or public mass-spectrometry data.

Not designed for

  • Replacing a validated quantitative preprocessing pipeline or formal statistical analysis.

Important requirements

  • A supported public-file reference, repository dataset, or uploaded/accessible data source.

Considerations

  • Dashboard visualization complements rather than replaces comprehensive quantitative preprocessing and statistical workflows.
  • Available plots and data access depend on file format and repository availability.
  • Preserve a shareable view or file/scan identifier, and distinguish interactive visualization settings from analytical processing parameters.

Education

Learn this tool

External tutorials and workshops collected by Navigator. Entries marked Needs review have not been checked end to end.

MANA 2021 GNPS Workshop - Networking, Dashboard, MASSTDorrestein Lab · Video Workshop · Needs reviewGNPS Dashboard - OverviewDorrestein Lab · Video Workshop · Needs reviewLC-MS data analysis with GNPS Dashboard — teaching exampleMichael T. Marty (linked from GNPS documentation) · Video · Needs review

Browse all education resources →

Access and documentation

Primary accessSource repositoryDocumentation

Hosted access and any account or usage requirements should be checked at the linked service. Access to a web service does not establish the license of its code or reference data.

Evidence and review

Documentation-based editorial pass on 6 September 2026: scope, interpretation limits and practical use reviewed against the linked official documentation and cited literature. Software execution, service availability and developer verification were not assessed.

Core publications

Resource papers, direct updates and tool-specific methods. Selection policy.

  1. Petras D, Phelan VV, Acharya D, et al. GNPS Dashboard: collaborative exploration of mass spectrometry data in the web browser. Nat Methods 19, 134-136 (2022). doi:10.1038/s41592-021-01339-5

Related tools

MassIVEIntegrates with · A public repository for depositing, preserving, browsing, downloading, and reusing mass-spectrometry datasets, including datasets connected to GNPS analyses.GNPSPart of · A web-based mass-spectrometry ecosystem for molecular networking, spectral-library search, repository-scale search, interactive visualization, knowledgebase curation, and public-data 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 · Entry update

    Expand and document 31 metabolomics tools and resources

    View change · Entry at this revision
  3. 2026-08-24 · First committed entry

    Complete GNPS SIRIUS and MZmine tool ecosystems

    View change · Entry at this revision

Full GitHub history