Registration Open for Bioc2024
Early registration discount pricing ends May 31!


This is the development version of metapone; for the stable release version, see metapone.

Conducts pathway test of metabolomics data using a weighted permutation test

Bioconductor version: Development (3.20)

The package conducts pathway testing from untargetted metabolomics data. It requires the user to supply feature-level test results, from case-control testing, regression, or other suitable feature-level tests for the study design. Weights are given to metabolic features based on how many metabolites they could potentially match to. The package can combine positive and negative mode results in pathway tests.

Author: Leqi Tian [aut], Tianwei Yu [aut], Tianwei Yu [cre]

Maintainer: Tianwei Yu <yutianwei at>

Citation (from within R, enter citation("metapone")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

metapone HTML R Script
Reference Manual PDF


biocViews MassSpectrometry, Metabolomics, Pathways, Software, Technology
Version 1.11.0
In Bioconductor since BioC 3.14 (R-4.1) (2.5 years)
License Artistic-2.0
Depends R (>= 4.1.0), BiocParallel, fields, markdown, fdrtool, fgsea, ggplot2, ggrepel
Imports methods
System Requirements
See More
Suggests rmarkdown, knitr
Linking To
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package metapone_1.11.0.tar.gz
Windows Binary
macOS Binary (x86_64) metapone_1.11.0.tgz
macOS Binary (arm64) metapone_1.11.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats