DOI: 10.18129/B9.bioc.structToolbox    

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see structToolbox.

Data processing & analysis tools for Metabolomics and other omics

Bioconductor version: 3.13

An extensive set of data (pre-)processing and analysis methods and tools for metabolomics and other omics, with a strong emphasis on statistics and machine learning. This toolbox allows the user to build extensive and standardised workflows for data analysis. The methods and tools have been implemented using class-based templates provided by the struct (Statistics in R Using Class-based Templates) package. The toolbox includes pre-processing methods (e.g. signal drift and batch correction, normalisation, missing value imputation and scaling), univariate (e.g. ttest, various forms of ANOVA, Kruskal–Wallis test and more) and multivariate statistical methods (e.g. PCA and PLS, including cross-validation and permutation testing) as well as machine learning methods (e.g. Support Vector Machines). The STATistics Ontology (STATO) has been integrated and implemented to provide standardised definitions for the different methods, inputs and outputs.

Author: Gavin Rhys Lloyd [aut, cre], Ralf Johannes Maria Weber [aut]

Maintainer: Gavin Rhys Lloyd <g.r.lloyd at>

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


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HTML R Script Data analysis of metabolomics and other omics datasets using the structToolbox
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biocViews Metabolomics, Software, WorkflowStep
Version 1.4.3
In Bioconductor since BioC 3.11 (R-4.0) (1.5 years)
License GPL-3
Depends R (>= 4.0), struct(>= 1.2.0)
Imports ggplot2, ggthemes, grid, gridExtra, methods, scales, sp, stats, utils
Suggests agricolae, BiocFileCache, BiocStyle, car, covr, cowplot, e1071, emmeans, ggdendro, knitr, magick, nlme, openxlsx, pls, pmp, reshape2, ropls, rmarkdown, Rtsne, testthat
Depends On Me
Imports Me
Suggests Me metabolomicsWorkbenchR
Links To Me
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