IPPD

This package is for version 3.10 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see IPPD.

Isotopic peak pattern deconvolution for Protein Mass Spectrometry by template matching


Bioconductor version: 3.10

The package provides functionality to extract isotopic peak patterns from raw mass spectra. This is done by fitting a large set of template basis functions to the raw spectrum using either nonnegative least squares or least absolute deviation fittting. The package offers a flexible function which tries to estimate model parameters in a way tailored to the peak shapes in the data. The package also provides functionality to process LCMS runs.

Author: Martin Slawski <ms at cs.uni-saarland.de>, Rene Hussong <rene.hussong at uni.lu>, Andreas Hildebrandt <andreas.hildebrandt at uni-mainz.de>, Matthias Hein <hein at cs.uni-saarland.de>

Maintainer: Martin Slawski <ms at cs.uni-saarland.de>

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

Installation

To install this package, start R (version "3.6") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("IPPD")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("IPPD")
IPPD Manual PDF R Script
Reference Manual PDF

Details

biocViews Proteomics, Software
Version 1.34.0
In Bioconductor since BioC 2.8 (R-2.13) (13 years)
License GPL (version 2 or later)
Depends R (>= 2.12.0), MASS, Matrix, XML, digest, bitops
Imports methods, stats, graphics
System Requirements
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Package Archives

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

Source Package IPPD_1.34.0.tar.gz
Windows Binary IPPD_1.34.0.zip
Mac OS X 10.11 (El Capitan) IPPD_1.34.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/IPPD
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/IPPD
Bioc Package Browser https://code.bioconductor.org/browse/IPPD/
Package Short Url https://bioconductor.org/packages/IPPD/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.10 Source Archive