To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("cosmiq")

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

cosmiq

 

   

This is the development version of cosmiq; for the stable release version, see cosmiq.

cosmiq - COmbining Single Masses Into Quantities

Bioconductor version: Development (3.4)

cosmiq is a tool for the preprocessing of liquid- or gas - chromatography mass spectrometry (LCMS/GCMS) data with a focus on metabolomics or lipidomics applications. To improve the detection of low abundant signals, cosmiq generates master maps of the mZ/RT space from all acquired runs before a peak detection algorithm is applied. The result is a more robust identification and quantification of low-intensity MS signals compared to conventional approaches where peak picking is performed in each LCMS/GCMS file separately. The cosmiq package builds on the xcmsSet object structure and can be therefore integrated well with the package xcms as an alternative preprocessing step.

Author: David Fischer <dajofischer at googlemail.com>, Christian Panse <cp at fgcz.ethz.ch>, Endre Laczko <endre.laczko at fgcz.uzh.ch>

Maintainer: David Fischer <dajofischer at googlemail.com>, Christian Panse <cp at fgcz.ethz.ch>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("cosmiq")

Documentation

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

browseVignettes("cosmiq")

 

PDF cosmiq primer
PDF   Reference Manual
Text   NEWS

Details

biocViews MassSpectrometry, Metabolomics, Software
Version 1.7.0
In Bioconductor since BioC 3.0 (R-3.1) (2 years)
License GPL-3
Depends R (>= 3.0.2), Rcpp
Imports pracma, xcms, MassSpecWavelet, faahKO
LinkingTo
Suggests RUnit, BiocGenerics, BiocStyle
SystemRequirements
Enhances
URL http://www.bioconductor.org/packages/devel/bioc/html/cosmiq.html
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source cosmiq_1.7.0.tar.gz
Windows Binary
Mac OS X 10.9 (Mavericks) cosmiq_1.7.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/cosmiq
Package Short Url http://bioconductor.org/packages/cosmiq/
Package Downloads Report Download Stats

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