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MsCoreUtils
This is thereleased version of MsCoreUtils; for the devel version, seeMsCoreUtils.
Core Utils for Mass Spectrometry Data
Bioconductor version: Release (3.22)
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.
Author: RforMassSpectrometry Package Maintainer [cre], Laurent Gatto [aut]
ORCID: 0000-0002-1520-2268, Johannes Rainer [aut] ORCID: 0000-0002-6977-7147, Sebastian Gibb [aut] ORCID: 0000-0001-7406-4443, Philippine Louail [aut] ORCID: 0009-0007-5429-6846, Adriaan Sticker [ctb], Sigurdur Smarason [ctb], Thomas Naake [ctb], Josep Maria Badia Aparicio [ctb] ORCID: 0000-0002-5704-1124, Michael Witting [ctb] ORCID: 0000-0002-1462-4426, Samuel Wieczorek [ctb], Roger Gine Bertomeu [ctb] ORCID: 0000-0003-0288-9619, Mar Garcia-Aloy [ctb] ORCID: 0000-0002-1330-6610
Maintainer: RforMassSpectrometry Package Maintainer <maintainer at rformassspectrometry.org>
citation("MsCoreUtils")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("MsCoreUtils")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("MsCoreUtils")| Core Utils for Mass Spectrometry Data | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Infrastructure,MassSpectrometry,Metabolomics,Proteomics,Software |
| Version | 1.22.1 |
| In Bioconductor since | BioC 3.11 (R-4.0) (5.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.6.0) |
| Imports | methods,S4Vectors,MASS, stats,clue |
| System Requirements | |
| URL | https://github.com/RforMassSpectrometry/MsCoreUtils |
| Bug Reports | https://github.com/RforMassSpectrometry/MsCoreUtils/issues |
See More
| Suggests | testthat,knitr,BiocStyle,rmarkdown,roxygen2,imputeLCMD,impute,norm,pcaMethods,vsn,Matrix,preprocessCore,missForest |
| Linking To | Rcpp |
| Enhances | HDF5Array |
| Depends On Me | |
| Imports Me | Chromatograms,CompoundDb,hdxmsqc,MetaboAnnotation,MetaboCoreUtils,MetCirc,MsBackendMassbank,MsBackendMgf,MsBackendMsp,MsBackendRawFileReader,MsBackendSql,MsFeatures,MSnbase,PSMatch,QFeatures,qmtools,scp,SmartPhos,Spectra,SpectraQL,SpectriPy,xcms |
| Suggests Me | MetNet,msqrob2 |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | MsCoreUtils_1.22.1.tar.gz |
| Windows Binary (x86_64) | MsCoreUtils_1.21.0.zip (64-bit only) |
| macOS Binary (x86_64) | MsCoreUtils_1.22.1.tgz |
| macOS Binary (arm64) | MsCoreUtils_1.22.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MsCoreUtils |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MsCoreUtils |
| Bioc Package Browser | https://code.bioconductor.org/browse/MsCoreUtils/ |
| Package Short Url | https://bioconductor.org/packages/MsCoreUtils/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.22 | Source Archive |