Package: MSPrep 1.22.0

Max McGrath

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

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.

Authors:Max McGrath [aut, cre], Matt Mulvahill [aut], Grant Hughes [aut], Sean Jacobson [aut], Harrison Pielke-lombardo [aut], Katerina Kechris [aut, cph, ths]

MSPrep_1.22.0.tar.gz
MSPrep_1.22.0.zip(r-4.7)MSPrep_1.22.0.zip(r-4.6)MSPrep_1.22.0.zip(r-4.5)
MSPrep_1.22.0.tgz(r-4.6-any)MSPrep_1.22.0.tgz(r-4.5-any)
MSPrep_1.22.0.tar.gz(r-4.7-any)MSPrep_1.22.0.tar.gz(r-4.6-any)
MSPrep_1.22.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
MSPrep/json (API)
NEWS

# Install 'MSPrep' in R:
install.packages('MSPrep', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/kechrislab/msprep/issues

Datasets:
  • COPD_131 - Example mass spectrometry dataset
  • msquant - Example mass spectrometry dataset.

On CRAN:

Conda:

metabolomicsmassspectrometrypreprocessing

5.60 score 10 stars 7 scripts 332 downloads 4 mentions 5 exports 164 dependencies

Last updated from:7f48077a8d (on RELEASE_3_23). Checks:1 WARNING, 7 ERROR, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksWARNING223
linux-devel-x86_64ERROR518
source / vignettesOK390
linux-release-x86_64ERROR519
macos-release-arm64ERROR451
macos-oldrel-arm64ERROR307
windows-develERROR476
windows-releaseERROR504
windows-oldrelERROR476
wasm-releaseOK196

Exports:msFiltermsImputemsNormalizemsPreparemsSummarize

Dependencies:abindannotateAnnotationDbiaskpassbackportsbbotkBHBiobaseBiocGenericsBiocParallelBiostringsbitbit64blobbootbroomcachemcarcarDatacheckmateclassclicodetoolscolorspacecowplotcpp11crayoncrmncurldata.tableDBIDelayedArrayDEoptimRDerivdigestdoBydoRNGdplyre1071edgeRevaluatefarverfastmapforeachforecastformatRFormulafracdifffutile.loggerfutile.optionsfuturefuture.applygenefiltergenericsGenomicRangesggplot2globalsgluegtablehttrIRangesisobanditeratorsitertoolsjsonliteKEGGRESTlabelinglaekenlambda.rlatticelgrlifecyclelimmalistenvlme4lmtestlocfitmagrittrMASSMatrixMatrixGenericsMatrixModelsmatrixStatsmemoisemgcvmicrobenchmarkmimeminqamiraimissForestmlbenchmlr3mlr3learnersmlr3measuresmlr3miscmlr3pipelinesmlr3tuningmodelrnanonextnlmenloptrnnetnumDerivopensslpalmerpenguinsparadoxparallellypbkrtestpcaMethodspillarpkgconfigpngpreprocessCoreproxyPRROCpurrrquantregR6randomForestrangerrbibutilsRColorBrewerRcppRcppArmadilloRcppEigenRdpackreformulasrlangrngtoolsrobustbaseRSQLiteS4ArraysS4VectorsS7scalesSeqinfosnowspSparseArraySparseMstatmodstringistringrSummarizedExperimentsurvivalsvasystibbletidyrtidyselecttimeDateurcautf8uuidvcdvctrsVIMviridisLitewithrxgboostXMLxtableXVectorzoo

Using MSPrep

Max McGrath, Matt Mulvahill, Grant Hughes, Sean Jacobson, Harrison Pielke-Lombardo, Katerina Kechris

Rendered fromusing_MSPrep.Rmdusingknitr::rmarkdownon May 29 2026.

Last update: 2020-10-09
Started: 2020-10-02