combine_spectra {cosmiq} | R Documentation |
combine_spectra
imports each raw file using xcmsRaw
and
assigns each ion to a previously defined mass vector, which is created using
bin size parameter mzbin
. This process is repeated for each raw file.
combine_spectra(xs, mzbin=0.003, linear=FALSE, continuum=FALSE)
xs |
xcmsSet object |
mzbin |
Bin size for the generation of mass vector |
linear |
logical. If TRUE, linear vector will be generated with
|
continuum |
boolean flag. default value is FALSE. |
This processing step calculates a combined mass spectrum. Mass spectra not only from all scans of a single LCMS run alone are combined but from all acquired datasets. As a result, signal to noise ratio increases for each additional LCMS run.
David Fischer 2013
cdfpath <- file.path(find.package("faahKO"), "cdf") my.input.files <- dir(c(paste(cdfpath, "WT", sep='/'), paste(cdfpath, "KO", sep='/')), full.names=TRUE) # create xcmsSet object xs <- new("xcmsSet") xs@filepaths <- my.input.files x<-combine_spectra(xs=xs, mzbin=0.25, linear=TRUE, continuum=FALSE) plot(x$mz, x$intensity, type='l', xlab='m/Z', ylab='ion intensity')