To install this package, start R and enter:

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

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

xcms

This package is for version 2.8 of Bioconductor; for the stable, up-to-date release version, see xcms.

LC/MS and GC/MS Data Analysis

Bioconductor version: 2.8

Framework for processing and visualization of chromatographically separated and single-spectra mass spectral data. Imports from AIA/ANDI NetCDF, mzXML, mzData and mzML files. Preprocesses data for high-throughput, untargeted analyte profiling.

Author: Colin A. Smith <csmith at scripps.edu>, Ralf Tautenhahn <rtautenh at scripps.edu>, Steffen Neumann <sneumann at ipb-halle.de>, Paul Benton <hpaul.benton08 at imperial.ac.uk>

Maintainer: Ralf Tautenhahn <rtautenh at scripps.edu>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("xcms")
PDF FlowChart.pdf
PDF xcmsDirect.pdf
PDF xcmsInstall.pdf
PDF xcmsMSn.pdf
PDF xcmsPreprocess.pdf
PDF Reference Manual

Details

biocViews MassSpectrometry, Software
Version 1.26.1
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 11 years)
License GPL (>= 2)
Depends R (>= 1.9.0), methods
Imports
LinkingTo
Suggests faahKO, msdata, multtest, ncdf, rgl, MassSpecWavelet(>= 1.5.2), RANN, snow
SystemRequirements NetCDF, zlib
Enhances Rgraphviz, XML, KEGGSOAP
URL http://metlin.scripps.edu/download/
Depends On Me CAMERA, faahKO, TargetSearch
Imports Me CAMERA, flagme, MSnbase
Suggests Me MassSpecWavelet, msdata
Build Report

Package Archives

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

Package Source xcms_1.26.1.tar.gz
Windows Binary xcms_1.26.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)
Mac OS X 10.9 (Mavericks)
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/xcms/tree/release-2.8
Package Short Url http://bioconductor.org/packages/xcms/
Package Downloads Report Download Stats

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