rawDiag
This is the development version of rawDiag; for the stable release version, see rawDiag.
Brings Orbitrap Mass Spectrometry Data to Life; Fast and Colorful
Bioconductor version: Development (3.21)
Optimizing methods for liquid chromatography coupled to mass spectrometry (LC-MS) poses a nontrivial challenge. The rawDiag package facilitates rational method optimization by generating MS operator-tailored diagnostic plots of scan-level metadata. The package is designed for use on the R shell or as a Shiny application on the Orbitrap instrument PC.
Author: Christian Panse [aut, cre] (ORCID:
Maintainer: Christian Panse <cp at fgcz.ethz.ch>
citation("rawDiag")
):
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("rawDiag")
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("rawDiag")
Brings Orbitrap Mass Spectrometry Data to Life; Fast and Colorful | HTML | R Script |
Reference Manual |
Details
biocViews | Infrastructure, MassSpectrometry, Metabolomics, Proteomics, ShinyApps, Software |
Version | 1.3.0 |
In Bioconductor since | BioC 3.19 (R-4.4) (0.5 years) |
License | GPL-3 |
Depends | R (>= 4.4) |
Imports | dplyr, ggplot2 (>= 3.4), grDevices, hexbin, htmltools, BiocManager, BiocParallel, rawrr(>= 1.13.3), rlang, reshape2, scales, shiny (>= 1.5), stats, utils |
System Requirements | mono 4.x or higher on OSX / Linux, .NET 4.x or higher on Windows, 'msbuild' and 'nuget' available in the path |
URL | https://github.com/fgcz/rawDiag/ |
Bug Reports | https://github.com/fgcz/rawDiag/issues |
See More
Suggests | BiocStyle(>= 2.28), ExperimentHub, tartare, knitr, testthat |
Linking To | |
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Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | rawDiag_1.3.0.tar.gz |
Windows Binary (x86_64) | |
macOS Binary (x86_64) | |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/rawDiag |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/rawDiag |
Bioc Package Browser | https://code.bioconductor.org/browse/rawDiag/ |
Package Short Url | https://bioconductor.org/packages/rawDiag/ |
Package Downloads Report | Download Stats |