Bioconductor – MsBackendSql

DOI: 10.18129/B9.bioc.MsBackendSql  

SQL-based Mass Spectrometry Data Backend

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")):

Installation

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.

Documentation

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
PDF   Reference Manual

Details

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 github.com/RforMassSpectrometry/MsBackendSql
BugReports github.com/RforMassSpectrometry/MsBackendSql/issues
Depends On Me
Imports Me
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Build Report  

Package Archives

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

Read more here: Source link