metapone

DOI: 10.18129/B9.bioc.metapone    

Conducts pathway test of metabolomics data using a weighted permutation test

Bioconductor version: Release (3.14)

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: Tianwei Yu [aut], Tianwei Yu [cre]

Maintainer: Tianwei Yu <yutianwei at cuhk.edu.cn>

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

Installation

To install this package, start R (version "4.1") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("metapone")

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

Documentation

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

browseVignettes("metapone")

 

HTML R Script metapone
PDF   Reference Manual

Details

biocViews MassSpectrometry, Metabolomics, Pathways, Software, Technology
Version 1.0.0
In Bioconductor since BioC 3.14 (R-4.1) (< 6 months)
License Artistic-2.0
Depends R (>= 4.1.0), BiocParallel, fields, markdown
Imports methods
LinkingTo
Suggests rmarkdown, knitr
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package metapone_1.0.0.tar.gz
Windows Binary metapone_1.0.0.zip
macOS 10.13 (High Sierra) metapone_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/metapone
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/metapone
Package Short Url https://bioconductor.org/packages/metapone/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.14 Source Archive

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