MsBackendSql
This is the development version of MsBackendSql; for the stable release version, see MsBackendSql.
SQL-based Mass Spectrometry Data Backend
Bioconductor version: Development (3.21)
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] (ORCID:
Maintainer: Johannes Rainer <Johannes.Rainer at eurac.edu>
citation("MsBackendSql")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("MsBackendSql")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("MsBackendSql")| Storing Mass Spectrometry Data in SQL Databases | HTML | R Script |
| Reference Manual |
Details
| biocViews | DataImport, Infrastructure, MassSpectrometry, Metabolomics, Proteomics, Software |
| Version | 1.7.0 |
| In Bioconductor since | BioC 3.17 (R-4.3) (1.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.2.0), Spectra(>= 1.15.10) |
| Imports | BiocParallel, S4Vectors, methods, ProtGenerics(>= 1.35.3), DBI, MsCoreUtils, IRanges, data.table, progress, BiocGenerics |
| System Requirements | |
| URL | https://github.com/RforMassSpectrometry/MsBackendSql |
| Bug Reports | https://github.com/RforMassSpectrometry/MsBackendSql/issues |
See More
| Suggests | testthat, knitr (>= 1.1.0), roxygen2, BiocStyle(>= 2.5.19), RSQLite, msdata, rmarkdown, microbenchmark, mzR |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | MsExperiment |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | MsBackendSql_1.7.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| 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 |