MSstatsConvert
This is the development version of MSstatsConvert; for the stable release version, see MSstatsConvert.
Import Data from Various Mass Spectrometry Signal Processing Tools to MSstats Format
Bioconductor version: Development (3.24)
MSstatsConvert provides tools for importing reports of Mass Spectrometry data processing tools into R format suitable for statistical analysis using the MSstats and MSstatsTMT packages.
Author: Mateusz Staniak [aut], Devon Kohler [aut], Anthony Wu [aut, cre], Meena Choi [aut], Ting Huang [aut], Olga Vitek [aut]
Maintainer: Anthony Wu <wu.anthon at northeastern.edu>
citation("MSstatsConvert")):
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("MSstatsConvert")
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("MSstatsConvert")| Working with MSstatsConvert | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataImport, MassSpectrometry, Proteomics, QualityControl, Software |
| Version | 1.23.3 |
| In Bioconductor since | BioC 3.12 (R-4.0) (6 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.0) |
| Imports | data.table, methods, checkmate, utils, stringi, Rcpp, parallel |
| System Requirements | |
| URL |
See More
| Suggests | tinytest, covr, knitr, arrow, rmarkdown |
| Linking To | Rcpp |
| Enhances | |
| Depends On Me | |
| Imports Me | MSstats, MSstatsBig, MSstatsLiP, MSstatsPTM, MSstatsShiny, MSstatsTMT |
| Suggests Me | MSstatsBioNet |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | MSstatsConvert_1.23.3.tar.gz |
| Windows Binary (x86_64) | MSstatsConvert_1.23.3.zip |
| macOS Binary (big-sur-x86_64) | MSstatsConvert_1.23.3.tgz |
| macOS Binary (sonoma-arm64) | MSstatsConvert_1.23.3.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MSstatsConvert |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MSstatsConvert |
| Bioc Package Browser | https://code.bioconductor.org/browse/MSstatsConvert/ |
| Package Short Url | https://bioconductor.org/packages/MSstatsConvert/ |
| Package Downloads Report | Download Stats |