DOI: 10.18129/B9.bioc.Spectra  

This is the development version of Spectra; for the stable release version, see Spectra.

Spectra Infrastructure for Mass Spectrometry Data

Bioconductor version: Development (3.18)

The Spectra package defines an efficient infrastructure for storing and handling mass spectrometry spectra and functionality to subset, process, visualize and compare spectra data. It provides different implementations (backends) to store mass spectrometry data. These comprise backends tuned for fast data access and processing and backends for very large data sets ensuring a small memory footprint.

Author: RforMassSpectrometry Package Maintainer [cre], Laurent Gatto [aut] , Johannes Rainer [aut] , Sebastian Gibb [aut] , Jan Stanstrup [ctb] , Nir Shahaf [ctb]

Maintainer: RforMassSpectrometry Package Maintainer <maintainer at rformassspectrometry.org>

Citation (from within R, enter citation("Spectra")):


To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


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HTML R Script Creating new `MsBackend` class
HTML R Script Description and usage of Spectra object
PDF   Reference Manual
Text   NEWS


biocViews Infrastructure, MassSpectrometry, Metabolomics, Proteomics, Software
Version 1.11.9
In Bioconductor since BioC 3.12 (R-4.0) (3 years)
License Artistic-2.0
Depends R (>= 4.0.0), S4Vectors, BiocParallel, ProtGenerics(>= 1.33.1)
Imports methods, IRanges, MsCoreUtils(>= 1.7.5), graphics, grDevices, stats, tools, utils, fs, BiocGenerics, MetaboCoreUtils
Suggests testthat, knitr (>= 1.1.0), msdata(>= 0.19.3), roxygen2, BiocStyle(>= 2.5.19), mzR(>= 2.19.6), rhdf5(>= 2.32.0), rmarkdown, vdiffr (>= 1.0.0), msentropy, patrick
URL https://github.com/RforMassSpectrometry/Spectra
BugReports https://github.com/RforMassSpectrometry/Spectra/issues
Depends On Me MetCirc, MsBackendMassbank, MsBackendMgf, MsBackendMsp, MsBackendRawFileReader, MsBackendSql
Imports Me CompoundDb, MetaboAnnotation, MobilityTransformR, MsExperiment, MsQuality, xcms
Suggests Me MetNet, MsDataHub, PSMatch
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package Spectra_1.11.9.tar.gz
Windows Binary Spectra_1.11.9.zip
macOS Binary (x86_64) Spectra_1.11.9.tgz
macOS Binary (arm64) Spectra_1.11.9.tgz
Source Repository git clone https://git.bioconductor.org/packages/Spectra
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Spectra
Bioc Package Browser https://code.bioconductor.org/browse/Spectra/
Package Short Url https://bioconductor.org/packages/Spectra/
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