msdata
This is the released version of msdata; for the devel version, see msdata.
Various Mass Spectrometry raw data example files
Bioconductor version: Release (3.23)
Ion Trap positive ionization mode data in mzML file format. Subset from 500-850 m/z and 1190-1310 seconds, incl. MS2 and MS3, intensity threshold 100.000. Extracts from FTICR Apex III, m/z 400-450. Subset of UPLC - Bruker micrOTOFq data, both mzML and mz5. LC-MSMS and MRM files from proteomics experiments. PSI mzIdentML example files for various search engines.
Author: Steffen Neumann <sneumann at ipb-halle.de>, Laurent Gatto <laurent.gatto at uclouvain.be> with contriutions from Johannes Rainer
Maintainer: Steffen Neumann <sneumann at ipb-halle.de>, Laurent Gatto <laurent.gatto at uclouvain.be>
citation("msdata")):
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")
BiocManager::install("msdata")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual | |
| NEWS | Text |
Details
| biocViews | ExperimentData, MassSpectrometryData |
| Version | 0.52.0 |
| License | GPL (>= 2) |
| Depends | R (>= 3.5.0) |
| Imports | |
| System Requirements | |
| URL |
See More
| Suggests | xcms, mzR, MSnbase |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | Chromatograms, IPO, MSnbase, peakPantheR, QFeatures, TargetDecoy, RforProteomics |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | msdata_0.52.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/msdata |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/msdata |
| Package Short Url | https://bioconductor.org/packages/msdata/ |
| Package Downloads Report | Download Stats |