rawDiag
This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see rawDiag.
Brings Orbitrap Mass Spectrometry Data to Life; Fast and Colorful
Bioconductor version: 3.19
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] 
, Christian Trachsel [aut], Tobias Kockmann [aut]
Maintainer: Christian Panse <cp at fgcz.ethz.ch>
citation("rawDiag")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
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 | ||
| NEWS | Text | |
| INSTALL | Text |
Details
| biocViews | Infrastructure, MassSpectrometry, Metabolomics, Proteomics, ShinyApps, Software |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.19 (R-4.4) (< 6 months) |
| License | GPL-3 |
| Depends | R (>= 4.3) |
| Imports | dplyr, ggplot2 (>= 3.4), grDevices, hexbin, htmltools, BiocManager, BiocParallel, rawrr(>= 1.10), 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 | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | rawDiag_1.0.0.tar.gz |
| Windows Binary (x86_64) | rawDiag_1.0.0.zip |
| macOS Binary (x86_64) | rawDiag_1.0.0.tgz |
| macOS Binary (arm64) | rawDiag_1.0.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/rawDiag |
| Source Repository (Developer Access) | git clone [email protected]:packages/rawDiag |
| Bioc Package Browser | https://code.bioconductor.org/browse/rawDiag/ |
| Package Short Url | https://bioconductor.org/packages/rawDiag/ |
| Package Downloads Report | Download Stats |