MALDIquant provides a complete analysis pipeline for matrix-assisted laser desorption/ionization-time-of-flight (MALDI-TOF) and other two-dimensional mass spectrometry data.
In addition to commonly used plotting and processing methods it includes distinctive features, namely baseline subtraction methods such as morphological filters (TopHat) or the statistics-sensitive non-linear iterative peak-clipping algorithm (SNIP), peak alignment using warping functions, handling of replicated measurements as well as allowing spectra with different resolutions.
For a first overview see
vignette("MALDIquant-intro", package="MALDIquant")
and/or run
demo("MALDIquant")
.
Package: | MALDIquant |
License: | GPL (>= 3) |
URL: | http://strimmerlab.org/software/maldiquant/ |
Main classes:
The accompanying website (see below) provides example R scripts to illustrate the functionality of this package, too.
S. Gibb and K. Strimmer. 2012. MALDIquant: a versatile R package for the analysis of mass spectrometry data. Bioinformatics 28: 2270-2271. http://bioinformatics.oxfordjournals.org/content/28/17/2270.abstract
Introduction:
vignette("MALDIquant-intro", package="MALDIquant")
.
Run demo files: demo("MALDIquant")
.
List all available manual pages: library(help="MALDIquant")
.
MALDIquant website: http://strimmerlab.org/software/maldiquant/.
more MALDIquant examples and complete analyses: https://github.com/sgibb/MALDIquantExamples/.