SWATH2stats
Transform and Filter SWATH Data for Statistical Packages
Bioconductor version: Release (3.19)
This package is intended to transform SWATH data from the OpenSWATH software into a format readable by other statistics packages while performing filtering, annotation and FDR estimation.
Author: Peter Blattmann [aut, cre] Moritz Heusel [aut] Ruedi Aebersold [aut]
Maintainer: Peter Blattmann <peter_blattmann at bluewin.ch>
Citation (from within R, enter
citation("SWATH2stats")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("SWATH2stats")
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("SWATH2stats")| SWATH2stats example script | R Script | |
| SWATH2stats package Vignette | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Annotation, ExperimentalDesign, ImmunoOncology, MassSpectrometry, Preprocessing, Proteomics, Software |
| Version | 1.34.0 |
| In Bioconductor since | BioC 3.2 (R-3.2) (9 years) |
| License | GPL-3 |
| Depends | R (>= 2.10.0) |
| Imports | data.table, reshape2, ggplot2, stats, grDevices, graphics, utils, biomaRt, methods |
| System Requirements | |
| URL | https://peterblattmann.github.io/SWATH2stats/ |
| Bug Reports | https://github.com/peterblattmann/SWATH2stats |
See More
| Suggests | testthat, knitr, rmarkdown |
| Linking To | |
| Enhances | MSstats, PECA, aLFQ |
| 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 | SWATH2stats_1.34.0.tar.gz |
| Windows Binary (x86_64) | SWATH2stats_1.34.0.zip |
| macOS Binary (x86_64) | SWATH2stats_1.34.0.tgz |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/SWATH2stats |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/SWATH2stats |
| Bioc Package Browser | https://code.bioconductor.org/browse/SWATH2stats/ |
| Package Short Url | https://bioconductor.org/packages/SWATH2stats/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.19 | Source Archive |