DOI: 10.18129/B9.bioc.qmtools  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see qmtools.

Quantitative Metabolomics Data Processing Tools

Bioconductor version: 3.17

The qmtools (quantitative metabolomics tools) package provides basic tools for processing quantitative metabolomics data with the standard SummarizedExperiment class. This includes functions for imputation, normalization, feature filtering, feature clustering, dimension-reduction, and visualization to help users prepare data for statistical analysis. This package also offers a convenient way to compute empirical Bayes statistics for which metabolic features are different between two sets of study samples. Several functions in this package could also be used in other types of omics data.

Author: Jaehyun Joo [aut, cre], Blanca Himes [aut]

Maintainer: Jaehyun Joo <jaehyunjoo at outlook.com>

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biocViews DimensionReduction, MassSpectrometry, Metabolomics, Normalization, Preprocessing, Software
Version 1.4.0
In Bioconductor since BioC 3.15 (R-4.2) (1.5 years)
License GPL-3
Depends R (>= 4.2.0), SummarizedExperiment
Imports rlang, ggplot2, patchwork, heatmaply, methods, MsCoreUtils, stats, igraph, VIM, scales, grDevices, graphics, limma
Suggests Rtsne, missForest, vsn, pcaMethods, pls, MsFeatures, impute, imputeLCMD, nlme, testthat (>= 3.0.0), BiocStyle, knitr, rmarkdown
URL https://github.com/HimesGroup/qmtools
BugReports https://github.com/HimesGroup/qmtools/issues
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