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.
This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see xcms.
Bioconductor version: 3.3
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 gmail.com>, Steffen Neumann <sneumann at ipb-halle.de>, Paul Benton <hpbenton at scripps.edu>, Christopher Conley <cjconley at ucdavis.edu>, Johannes Rainer <Johannes.Rainer at eurac.edu>
Maintainer: Steffen Neumann <sneumann at ipb-halle.de>
Citation (from within R,
enter citation("xcms")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("xcms")
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("xcms")
R Script | Grouping FTICR-MS data with xcms | |
Installation Instructions for xcms | ||
R Script | LC/MS Preprocessing and Analysis with xcms | |
R Script | Processing Tandem-MS and MS$^n$ data with xcms | |
Reference Manual | ||
Text | NEWS | |
Text | LICENSE |
biocViews | MassSpectrometry, Metabolomics, Software |
Version | 1.48.0 |
In Bioconductor since | BioC 1.6 (R-2.1) or earlier (> 11.5 years) |
License | GPL (>= 2) + file LICENSE |
Depends | R (>= 2.14.0), methods, mzR(>= 1.1.6), BiocGenerics, ProtGenerics, Biobase |
Imports | lattice, RColorBrewer |
LinkingTo | |
Suggests | faahKO, msdata, ncdf4, multtest, rgl, MassSpecWavelet(>= 1.5.2), RANN, RUnit, parallel |
SystemRequirements | |
Enhances | Rgraphviz, Rmpi, XML |
URL | http://metlin.scripps.edu/download/ and https://github.com/sneumann/xcms |
BugReports | https://github.com/sneumann/xcms/issues/new |
Depends On Me | CAMERA, faahKO, flagme, Metab, metaMS |
Imports Me | CAMERA, cosmiq, MAIT, metaX, Risa |
Suggests Me | MassSpecWavelet, msdata, mtbls2, RforProteomics, RMassBank, ropls |
Build Report |
Follow Installation instructions to use this package in your R session.
Package Source | xcms_1.48.0.tar.gz |
Windows Binary | xcms_1.48.0.zip (32- & 64-bit) |
Mac OS X 10.9 (Mavericks) | xcms_1.48.0.tgz |
Subversion source | (username/password: readonly) |
Git source | https://github.com/Bioconductor-mirror/xcms/tree/release-3.3 |
Package Short Url | http://bioconductor.org/packages/xcms/ |
Package Downloads Report | Download Stats |
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