- Home
- Bioconductor 3.3
- Software Packages
- synapter
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("synapter")
In most cases, you don't need to download the package archive at all.
synapter
|
This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see synapter.
Label-free data analysis pipeline for optimal identification and quantitation
Bioconductor version: 3.3
The synapter package provides functionality to reanalyse label-free proteomics data acquired on a Synapt G2 mass spectrometer. One or several runs, possibly processed with additional ion mobility separation to increase identification accuracy can be combined to other quantitation files to maximise identification and quantitation accuracy.
Author: Laurent Gatto, Nick J. Bond and Pavel V. Shliaha and Sebastian Gibb.
Maintainer: Laurent Gatto <lg390 at cam.ac.uk> and Sebastian Gibb <mail at sebastiangibb.de>
Citation (from within R,
enter citation("synapter")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("synapter")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("synapter")
| R Script | Combining HDMSe/MSe data using 'synapter' to optimise identification and quantitation | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | GUI, MassSpectrometry, Proteomics, Software |
| Version | 1.14.2 |
| In Bioconductor since | BioC 2.11 (R-2.15) (4 years) |
| License | GPL-2 |
| Depends | R (>= 2.15), methods, MSnbase |
| Imports | hwriter, RColorBrewer, lattice, qvalue, multtest, utils, Biobase, knitr, Biostrings, cleaver, BiocParallel |
| LinkingTo | |
| Suggests | synapterdata, xtable, tcltk, BiocStyle |
| SystemRequirements | |
| Enhances | |
| URL | http://lgatto.github.com/synapter/ |
| Depends On Me | synapterdata |
| Imports Me | |
| Suggests Me | pRoloc, RforProteomics |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | synapter_1.14.2.tar.gz |
| Windows Binary | synapter_1.14.2.zip |
| Mac OS X 10.9 (Mavericks) | synapter_1.14.2.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/synapter/tree/release-3.3 |
| Package Short Url | http://bioconductor.org/packages/synapter/ |
| Package Downloads Report | Download Stats |
Documentation »
Bioconductor
- Package vignettes and manuals.
- Workflows for learning and use.
- Course and conference material.
- Videos.
- Community resources and tutorials.
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations:
- Support site - for questions about Bioconductor packages
- Bioc-devel mailing list - for package developers
