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 3.1 of Bioconductor; for the stable, up-to-date release version, see synapter.

Label-free data analysis pipeline for optimal identification and quantitation

Bioconductor version: 3.1

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")
PDF R Script Combining HDMSe/MSe data using 'synapter' to optimise identification and quantitation
PDF Reference Manual
Text NEWS

Details

biocViews GUI, MassSpectrometry, Proteomics, Software
Version 1.10.0
In Bioconductor since BioC 2.11 (R-2.15) (3.5 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, tcltk2, 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_1.10.0.tar.gz
Windows Binary synapter_1.10.0.zip
Mac OS X 10.6 (Snow Leopard) synapter_1.10.0.tgz
Mac OS X 10.9 (Mavericks) synapter_1.10.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/synapter/tree/release-3.1
Package Short Url http://bioconductor.org/packages/synapter/
Package Downloads Report Download Stats

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