xcms
LC/MS and GC/MS Data Analysis
Bioconductor version: 2.6
Framework for processing and visualization of chromatographically separated and single-spectra mass spectral data. Imports from AIA/ANDI NetCDF, mzXML, and mzData 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>
Maintainer: Colin A. Smith <csmith at scripps.edu>
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("xcms")
To cite this package in a publication, start R and enter:
citation("xcms")
Documentation
| FlowChart.pdf | ||
| R Script | Grouping FTICR-MS data with xcms | |
| R Script | Installation Instructions for xcms | |
| R Script | LC/MS Preprocessing and Analysis with xcms | |
| R Script | Processing Tandem-MS and MS$^n$ data with with xcms | |
| Reference Manual |
Details
| biocViews | Technology, MassSpectrometry |
| Depends | R (>= 1.9.0), methods |
| Imports | |
| Suggests | faahKO, msdata, multtest, ncdf, rgl, MassSpecWavelet(>= 1.5.2), RANN, snow |
| System Requirements | NetCDF, zlib |
| License | GPL (>= 2) |
| URL | http://metlin.scripps.edu/download/ |
| Depends On Me | CAMERA, TargetSearch |
| Imports Me | CAMERA, flagme |
| Suggests Me | faahKO, MassSpecWavelet, msdata |
| Version | 1.22.1 |
| Since | Bioconductor 1.6 (R-2.1) or earlier |
Package Downloads
| Package Source | xcms_1.22.1.tar.gz |
| Windows Binary | xcms_1.22.1.zip (32- & 64-bit) |
| MacOS 10.5 (Leopard) binary | xcms_1.22.1.tgz |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Annotation
- Variants
- Flow Cytometry and other assays
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