To install this package, start R and enter:

## try http:// if https:// URLs are not supported

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


DOI: 10.18129/B9.bioc.xcms    

LC/MS and GC/MS Data Analysis

Bioconductor version: Release (3.5)

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>, Ralf Tautenhahn <rtautenh at>, Steffen Neumann <sneumann at>, Paul Benton <hpbenton at>, Christopher Conley <cjconley at>, Johannes Rainer <Johannes.Rainer at>

Maintainer: Steffen Neumann <sneumann at>

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


To install this package, start R and enter:

## try http:// if https:// URLs are not supported


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



PDF R Script Grouping FTICR-MS data with xcms
PDF Installation Instructions for xcms
PDF R Script LC/MS Preprocessing and Analysis with xcms
PDF R Script Processing Tandem-MS and MS$^n$ data with xcms
HTML R Script New and modified functionality in xcms
PDF   Reference Manual
Text   NEWS


biocViews MassSpectrometry, Metabolomics, Software
Version 1.52.0
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 12.5 years)
License GPL (>= 2) + file LICENSE
Depends R (>= 2.14.0), methods, Biobase, BiocParallel(>= 1.8.0), MSnbase(>= 2.1.10)
Imports mzR(>= 1.1.6), BiocGenerics, ProtGenerics, lattice, RColorBrewer, plyr, RANN, multtest, MassSpecWavelet(>= 1.5.2), S4Vectors
Suggests BiocStyle, knitr (>= 1.1.0), faahKO, msdata, ncdf4, rgl, microbenchmark, RUnit
Enhances Rgraphviz, Rmpi, XML
URL and
Depends On Me CAMERA, faahKO, flagme, IPO, LOBSTAHS, Metab, metaMS, proFIA, PtH2O2lipids
Imports Me CAMERA, cosmiq, MAIT, Risa
Suggests Me MassSpecWavelet, msdata, msPurity, mtbls2, RforProteomics, RMassBank, ropls
Build Report  

Package Archives

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

Source Package xcms_1.52.0.tar.gz
Windows Binary (32- & 64-bit)
Mac OS X 10.11 (El Capitan) xcms_1.52.0.tgz
Source Repository git clone
Package Short Url
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: