SpectraQL

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

MassQL support for Spectra

Bioconductor version: Development (3.21)

The Mass Spec Query Language (MassQL) is a domain-specific language enabling to express a query and retrieve mass spectrometry (MS) data in a more natural and understandable way for MS users. It is inspired by SQL and is by design programming language agnostic. The SpectraQL package adds support for the MassQL query language to R, in particular to MS data represented by Spectra objects. Users can thus apply MassQL expressions to analyze and retrieve specific data from Spectra objects.

Author: Johannes Rainer [aut, cre] (ORCID: ), Andrea Vicini [aut], Sebastian Gibb [ctb] (ORCID: )

Maintainer: Johannes Rainer <Johannes.Rainer at eurac.edu>

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

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("SpectraQL")

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("SpectraQL")

Mass Spec Query Language Support to the Spectra Package	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Infrastructure, MassSpectrometry, Metabolomics, Proteomics, Software
Version	1.1.0
In Bioconductor since	BioC 3.20 (R-4.4) (< 6 months)
License	Artistic-2.0
Depends	R (>= 4.4.0), ProtGenerics(>= 1.25.1)
Imports	Spectra(>= 1.5.6), MsCoreUtils, methods
System Requirements
URL	https://github.com/RforMassSpectrometry/SpectraQL
Bug Reports	https://github.com/RforMassSpectrometry/SpectraQL/issues

Suggests	testthat, msdata(>= 0.19.3), roxygen2, rmarkdown, knitr, S4Vectors, BiocStyle, mzR
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
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Build Report	Build Report

Package Archives

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

Source Package	SpectraQL_1.1.0.tar.gz
Windows Binary (x86_64)	SpectraQL_1.1.0.zip
macOS Binary (x86_64)	SpectraQL_1.1.0.tgz
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/SpectraQL
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/SpectraQL
Bioc Package Browser	https://code.bioconductor.org/browse/SpectraQL/
Package Short Url	https://bioconductor.org/packages/SpectraQL/
Package Downloads Report	Download Stats