To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("synapter")

In most cases, you don't need to download the package archive at all.

synapter

Label-free data analysis pipeline for optimal identification and quantitation

Bioconductor version: Release (2.14)

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 with contributions from Sebastian Gibb.

Maintainer: Laurent Gatto <lg390 at cam.ac.uk>

Citation (from within R, enter citation("synapter")):

Installation

To install this package, start R and enter:

source("http://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 1.6.0
In Bioconductor since BioC 2.11 (R-2.15)
License GPL-2
Depends R (>= 2.15), methods, MSnbase
Imports hwriter, tcltk, tcltk2, RColorBrewer, lattice, qvalue, multtest, utils, Biobase, knitr, Biostrings, cleaver, BiocParallel
Suggests synapterdata, xtable
System Requirements
URL http://lgatto.github.com/synapter/
Depends On Me synapterdata
Imports Me
Suggests Me pRoloc, RforProteomics

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source synapter_1.6.0.tar.gz
Windows Binary synapter_1.6.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) synapter_1.6.0.tgz
Mac OS X 10.9 (Mavericks) synapter_1.6.0.tgz
Browse/checkout source (username/password: readonly)
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