MSPrep

Package for Summarizing, Filtering, Imputing, and Normalizing Metabolomics Data

Bioconductor version: 3.23 · Package version: 1.22.0

Package performs summarization of replicates, filtering by frequency, several different options for imputing missing data, and a variety of options for transforming, batch correcting, and normalizing data.

Installation

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

BiocManager::install("MSPrep")

Details

Maintainer	Max McGrath <max.mcgrath@ucdenver.edu>
Author	Max McGrath [aut, cre], Matt Mulvahill [aut], Grant Hughes [aut], Sean Jacobson [aut], Harrison Pielke-lombardo [aut], Katerina Kechris [aut, cph, ths]
License	GPL-3
URL	https://github.com/KechrisLab/MSPrep
Bug Reports	https://github.com/KechrisLab/MSPrep/issues
Status	Deprecated
Downloads rank	221
Source branch	RELEASE_3_23
biocViews	MassSpectrometry, Metabolomics, Preprocessing, Software

Documentation

Using MSPrep

Download

Source package

Dependencies

Depends: R (>= 4.1.0)

Imports: SummarizedExperiment, S4Vectors, pcaMethods (>= 1.24.0), crmn, preprocessCore, dplyr (>= 0.7), tidyr, tibble (>= 1.2), magrittr, rlang, stats, stringr, methods, missForest, sva, VIM

Suggests: BiocStyle, knitr, rmarkdown, testthat (>= 1.0.2)