DOI: 10.18129/B9.bioc.synapter  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see synapter.

Label-free data analysis pipeline for optimal identification and quantitation

Bioconductor version: 3.16

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, Pavel V. Shliaha and Sebastian Gibb.

Maintainer: Laurent Gatto <laurent.gatto at> Sebastian Gibb <mail at>

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


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HTML R Script Combining HDMSe/MSe data using 'synapter' to optimise identification and quantitation
HTML R Script Fragment matching using 'synapter'
HTML R Script Synapter2 and synergise2
PDF   Reference Manual


biocViews ImmunoOncology, MassSpectrometry, Proteomics, QualityControl, Software
Version 2.22.0
In Bioconductor since BioC 2.11 (R-2.15) (10.5 years)
License GPL-2
Depends R (>= 3.1.0), methods, MSnbase(>= 2.1.2)
Imports RColorBrewer, lattice, qvalue, multtest, utils, tools, Biobase, Biostrings, cleaver(>= 1.3.3), readr (>= 0.2), rmarkdown (>= 1.0)
Suggests synapterdata(>= 1.13.2), xtable, testthat (>= 0.8), BRAIN, BiocStyle, knitr
Depends On Me synapterdata
Imports Me
Suggests Me
Links To Me
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