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MsBackendSql

SQL-based Mass Spectrometry Data Backend

Bioconductor version: 3.23 · Package version: 1.12.0

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.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("MsBackendSql")

Details

MaintainerJohannes Rainer <Johannes.Rainer@eurac.edu>
AuthorJohannes Rainer [aut, cre] (ORCID: <https://orcid.org/0000-0002-6977-7147>), Chong Tang [ctb], Laurent Gatto [ctb] (ORCID: <https://orcid.org/0000-0002-1520-2268>)
LicenseArtistic-2.0
URLhttps://github.com/RforMassSpectrometry/MsBackendSql
Bug Reportshttps://github.com/RforMassSpectrometry/MsBackendSql/issues
Downloads rank274
Source branchRELEASE_3_23
biocViewsDataImport, Infrastructure, MassSpectrometry, Metabolomics, Proteomics, Software

Documentation

Download

Dependencies

Depends: R (>= 4.2.0), Spectra (>= 1.19.8)

Imports: BiocParallel, S4Vectors, methods, ProtGenerics (>= 1.35.3), DBI, MsCoreUtils, IRanges, data.table, progress, stringi, fastmatch, BiocGenerics

Suggests: testthat, knitr (>= 1.1.0), roxygen2, BiocStyle (>= 2.5.19), RSQLite, MsDataHub, rmarkdown, microbenchmark, mzR

Reverse dependencies

Suggests Me (1): MsExperiment