MSPrep
This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.
This package is for version 3.23 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see MSPrep.
Package for Summarizing, Filtering, Imputing, and Normalizing Metabolomics Data
Bioconductor version: Release (3.23)
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.
Author: Max McGrath [aut, cre], Matt Mulvahill [aut], Grant Hughes [aut], Sean Jacobson [aut], Harrison Pielke-lombardo [aut], Katerina Kechris [aut, cph, ths]
Maintainer: Max McGrath <max.mcgrath at ucdenver.edu>
citation("MSPrep")):Max McGrath, Matt Mulvahill, Grant Hughes, Sean Jacobson, Harrison Pielke-lombardo, Katerina Kechris. MSPrep: Package for Summarizing, Filtering, Imputing, and Normalizing Metabolomics Data. doi:10.18129/B9.bioc.MSPrep, R package version 1.21.1, https://bioconductor.org/packages/MSPrep.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("MSPrep")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("MSPrep")| Using MSPrep | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | MassSpectrometry, Metabolomics, Preprocessing, Software |
| Version | 1.21.1 |
| In Bioconductor since | BioC 3.12 (R-4.0) (6 years) |
| License | GPL-3 |
| 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 |
| System Requirements | |
| URL | https://github.com/KechrisLab/MSPrep |
| Bug Reports | https://github.com/KechrisLab/MSPrep/issues |
See More
| Suggests | BiocStyle, knitr, rmarkdown, testthat (>= 1.0.2) |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | MSPrep_1.21.1.tar.gz |
| Windows Binary (x86_64) | MSPrep_1.21.1.zip |
| macOS Binary (big-sur-x86_64) | MSPrep_1.21.1.tgz |
| macOS Binary (sonoma-arm64) | MSPrep_1.21.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MSPrep |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MSPrep |
| Package Short Url | https://bioconductor.org/packages/MSPrep/ |
| Package Downloads Report | Download Stats |