rawrr
This is the development version of rawrr; for the stable release version, see rawrr.
Direct Access to Orbitrap Data and Beyond
Bioconductor version: Development (3.24)
This package wraps the functionality of the Thermo Fisher Scientic RawFileReader .NET 8.0 assembly. Within the R environment, spectra and chromatograms are represented by S3 objects. The package provides basic functions to download and install the required third-party libraries. The package is developed, tested, and used at the Functional Genomics Center Zurich, Switzerland.
Author: Christian Panse [aut, cre]
, Leonardo Schwarz [ctb]
, Tobias Kockmann [aut]
Maintainer: Christian Panse <cp at fgcz.ethz.ch>
citation("rawrr")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("rawrr")
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("rawrr")| Direct Access to Orbitrap Data and Beyond | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| INSTALL | Text |
Details
| biocViews | Infrastructure, MassSpectrometry, Metabolomics, Proteomics, Software |
| Version | 1.21.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (5 years) |
| License | GPL-3 |
| Depends | R (>= 4.5) |
| Imports | grDevices, graphics, stats, utils |
| System Requirements | .NET 8.0 (optional; required only if you want to compile and link the C# code) |
| URL | https://github.com/fgcz/rawrr/ |
| Bug Reports | https://github.com/fgcz/rawrr/issues |
See More
| Suggests | BiocStyle(>= 2.5), ExperimentHub, knitr, protViz (>= 0.7), rmarkdown, tartare(>= 1.5), testthat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | MsBackendRawFileReader, rawDiag |
| Suggests Me | lcmsPlot |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | rawrr_1.21.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | rawrr_1.21.0.tgz |
| macOS Binary (sonoma-arm64) | rawrr_1.21.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/rawrr |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/rawrr |
| Bioc Package Browser | https://code.bioconductor.org/browse/rawrr/ |
| Package Short Url | https://bioconductor.org/packages/rawrr/ |
| Package Downloads Report | Download Stats |