Bioc2026 Registration Open!

MsCoreUtils

Core Utils for Mass Spectrometry Data

Bioconductor version: 3.23 · Package version: 1.24.0

MsCoreUtils defines low-level functions for mass spectrometry data and is independent of any high-level data structures. These functions include mass spectra processing functions (noise estimation, smoothing, binning, baseline estimation), quantitative aggregation functions (median polish, robust summarisation, ...), missing data imputation, data normalisation (quantiles, vsn, ...), misc helper functions, that are used across high-level data structure within the R for Mass Spectrometry packages.

Installation

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

BiocManager::install("MsCoreUtils")

Details

MaintainerRforMassSpectrometry Package Maintainer <maintainer@rformassspectrometry.org>
AuthorRforMassSpectrometry Package Maintainer [cre], Laurent Gatto [aut] (ORCID: <https://orcid.org/0000-0002-1520-2268>), Johannes Rainer [aut] (ORCID: <https://orcid.org/0000-0002-6977-7147>), Sebastian Gibb [aut] (ORCID: <https://orcid.org/0000-0001-7406-4443>), Philippine Louail [aut] (ORCID: <https://orcid.org/0009-0007-5429-6846>), Adriano Rutz [aut] (ORCID: <https://orcid.org/0000-0003-0443-9902>), Adriaan Sticker [ctb], Sigurdur Smarason [ctb], Thomas Naake [ctb], Josep Maria Badia Aparicio [ctb] (ORCID: <https://orcid.org/0000-0002-5704-1124>), Michael Witting [ctb] (ORCID: <https://orcid.org/0000-0002-1462-4426>), Samuel Wieczorek [ctb], Roger Gine Bertomeu [ctb] (ORCID: <https://orcid.org/0000-0003-0288-9619>), Mar Garcia-Aloy [ctb] (ORCID: <https://orcid.org/0000-0002-1330-6610>), Gabriele Tomè [ctb] (ORCID: <https://orcid.org/0000-0002-3976-6068>)
LicenseArtistic-2.0
URLhttps://github.com/RforMassSpectrometry/MsCoreUtils
Bug Reportshttps://github.com/RforMassSpectrometry/MsCoreUtils/issues
Downloads rank4571
Source branchRELEASE_3_23
biocViewsInfrastructure, MassSpectrometry, Metabolomics, Proteomics, Software

Documentation

Download

Dependencies

Depends: R (>= 3.6.0)

Imports: methods, S4Vectors, MASS, stats, clue

LinkingTo: Rcpp

Suggests: testthat, knitr, BiocStyle, rmarkdown, roxygen2, imputeLCMD, impute, norm, pcaMethods, vsn, Matrix, preprocessCore, missForest, rlang

Enhances: HDF5Array

Reverse dependencies

Imports Me (24): Chromatograms, CompoundDb, hdxmsqc, MetaboAnnotation, MetaboCoreUtils, MetCirc, MsBackendMassbank, MsBackendMetaboLights, MsBackendMgf, MsBackendMsp, MsBackendRawFileReader, MsBackendSql, MsFeatures, MSnbase, MsQuality, PSMatch, QFeatures, qmtools, scp, SmartPhos, Spectra, SpectraQL, SpectriPy, xcms

Suggests Me (3): MetNet, msqrob2, sfi