Metabolomics Navigator Tools, strategies & workflow guidance for metabolomics

Quality control and filtering

MAFFIN

Normalize metabolomics feature intensities using selected features and corrected signal responses.

LC-MSR packageOpen source
Access toolSuggest an update

Overview

MAFFIN combines feature-quality selection, signal-intensity correction and maximal-density fold-change normalization. Its R implementation returns normalized intensities, normalization factors and variation summaries.

What can this tool do?

Feature selection

Common uses

  • Normalize processed feature tables using the documented QC design.

Scientific fit

Primary function

Quality control and filtering

Data compatibility

Inputs

Feature or peak table, Sample metadata

Outputs

Feature or peak table, Human-readable report

Input formats

CSV/data frame with features, samples and QC-group annotations

Output formats

Normalized table, normalization factors and PRMAD summaries as an R list or CSV

Scope and considerations

Designed for

  • Normalize metabolomics feature intensities using selected features and corrected signal responses.

Not designed for

  • Confirming compound identity or replacing study design and scientific review.

Important requirements

  • An appropriately annotated feature table; serial QC loading amounts for the signal-correction component.
  • Feature-by-sample CSV/data frame with group annotations for blanks, QC and serial QC loading levels

Considerations

  • Do not assume that missing serial-QC information can be reconstructed from ordinary study samples.
  • Normalization can change biological contrasts; evaluate its assumptions for the study.

Access and documentation

Primary access

License checked against official package metadata or repository. Local setup requires the documented dependencies; no installation or hosted-service availability test was performed.

License: MIT

Evidence and review

Enveda intake candidate verified against official documentation, source/package metadata and primary-publication DOI/title/year on 2026-10-02. Editorial review only; no software execution or independent benchmark.

Core publications

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

  1. MAFFIN: metabolomics sample normalization using maximal density fold change with high-quality metabolic features and corrected signal intensities. Bioinformatics (2022). doi:10.1093/bioinformatics/btac355

Related tools

dbnormSimilar function · Compare statistical batch-correction models and inspect technical variation in metabolomics matrices.InjectionDesignSimilar function · A web service for designing LC-MS and GC-MS multi-omics injection sequences with QC placement, inter-batch balancing, intra-batch randomization, and downloadable worksheets.IonToolPackSimilar function · IonToolPack groups graphical mass-spectrometry utilities for raw-data visualization, PeakQC quality assessment, tandem-library matching, targeted MS1 extraction and feature-list comparison.ISFragSimilar function · ISFrag recognizes candidate in-source fragments in LC-MS data by combining feature relationships and available MS/MS evidence.

Entry history

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

  1. 2026-10-05 · First committed entry

    Add seven source-validated QC tools and Enveda intake ledger

    View change · Entry at this revision

Full GitHub history