Bioconductor version: Release (3.17)
SQL-based mass spectrometry (MS) data backend supporting also storange and handling of very large data sets. Objects from this package are supposed to be used with the Spectra Bioconductor package. Through the MsBackendSql with its minimal memory footprint, this package thus provides an alternative MS data representation for very large or remote MS data sets.
Author: Johannes Rainer [aut, cre] , Chong Tang [ctb], Laurent Gatto [ctb]
Maintainer: Johannes Rainer <Johannes.Rainer at eurac.edu>
Citation (from within R,
enter citation("MsBackendSql")
):
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("MsBackendSql")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("MsBackendSql")
HTML | R Script | Storing Mass Spectrometry Data in SQL Databases |
Reference Manual |
biocViews | DataImport, Infrastructure, MassSpectrometry, Metabolomics, Proteomics, Software |
Version | 1.0.1 |
In Bioconductor since | BioC 3.17 (R-4.3) (< 6 months) |
License | Artistic-2.0 |
Depends | R (>= 4.2.0), Spectra(>= 1.9.12) |
Imports | BiocParallel, S4Vectors, methods, ProtGenerics, DBI, MsCoreUtils, IRanges, data.table, progress |
LinkingTo | |
Suggests | testthat, knitr (>= 1.1.0), roxygen2, BiocStyle(>= 2.5.19), RSQLite, msdata, rmarkdown, microbenchmark, mzR |
SystemRequirements | |
Enhances | |
URL | https://github.com/RforMassSpectrometry/MsBackendSql |
BugReports | https://github.com/RforMassSpectrometry/MsBackendSql/issues |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | MsBackendSql_1.0.1.tar.gz |
Windows Binary | MsBackendSql_1.0.1.zip |
macOS Binary (x86_64) | MsBackendSql_1.0.1.tgz |
macOS Binary (arm64) | MsBackendSql_1.0.1.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/MsBackendSql |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MsBackendSql |
Bioc Package Browser | https://code.bioconductor.org/browse/MsBackendSql/ |
Package Short Url | https://bioconductor.org/packages/MsBackendSql/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.17 | Source Archive |
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