hdxmsqc

An R package for quality Control for hydrogen deuterium exchange mass spectrometry experiments


Bioconductor version: Release (3.19)

The hdxmsqc package enables us to analyse and visualise the quality of HDX-MS experiments. Either as a final quality check before downstream analysis and publication or as part of a interative procedure to determine the quality of the data. The package builds on the QFeatures and Spectra packages to integrate with other mass-spectrometry data.

Author: Oliver M. Crook [aut, cre]

Maintainer: Oliver M. Crook <oliver.crook at stats.ox.ac.uk>

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

Installation

To install this package, start R (version "4.4") and enter:


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

BiocManager::install("hdxmsqc")

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("hdxmsqc")
Qualityt control for differential hydrogen deuterium exchange mass spectrometry data HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews DataImport, MassSpectrometry, Metabolomics, Proteomics, QualityControl, Software
Version 1.0.1
In Bioconductor since BioC 3.19 (R-4.4) (< 6 months)
License file LICENSE
Depends R (>= 4.3), QFeatures, S4Vectors, Spectra
Imports dplyr, tidyr, ggplot2, BiocStyle, knitr, methods, grDevices, stats, MsCoreUtils
System Requirements
URL http://github.com/ococrook/hdxmsqc
Bug Reports https://github.com/ococrook/hdxmsqc/issues
See More
Suggests RColorBrewer, pheatmap, MASS, patchwork, testthat
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Package Archives

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

Source Package hdxmsqc_1.0.1.tar.gz
Windows Binary hdxmsqc_1.0.1.zip
macOS Binary (x86_64) hdxmsqc_1.0.1.tgz
macOS Binary (arm64) hdxmsqc_1.0.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/hdxmsqc
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/hdxmsqc
Bioc Package Browser https://code.bioconductor.org/browse/hdxmsqc/
Package Short Url https://bioconductor.org/packages/hdxmsqc/
Package Downloads Report Download Stats