Description Usage Arguments Value Author(s) References See Also
Find peaks in the chromatographic time domain of the
profile matrix. For more details see
do_findChromPeaks_matchedFilter
.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 |
object |
The |
fwhm |
|
sigma |
|
max |
|
snthresh |
|
step |
numeric(1) specifying the width of the bins/slices in m/z dimension. |
steps |
|
mzdiff |
|
index |
|
sleep |
(DEPRECATED). The use of this parameter is highly discouraged, as it could cause problems in parallel processing mode. |
scanrange |
Numeric vector defining the range of scans to which the
original |
A matrix, each row representing an intentified chromatographic peak, with columns:
Intensity weighted mean of m/z values of the peak across scans.
Minimum m/z of the peak.
Maximum m/z of the peak.
Retention time of the peak's midpoint.
Minimum retention time of the peak.
Maximum retention time of the peak.
Integrated (original) intensity of the peak.
Integrated intensity of the filtered peak.
Maximum intensity of the peak.
Maximum intensity of the filtered peak.
Rank of peak in merged EIC (<= max
).
Signal to noise ratio of the peak.
Colin A. Smith
Colin A. Smith, Elizabeth J. Want, Grace O'Maille, Ruben Abagyan and Gary Siuzdak. "XCMS: Processing Mass Spectrometry Data for Metabolite Profiling Using Nonlinear Peak Alignment, Matching, and Identification" Anal. Chem. 2006, 78:779-787. @family Old peak detection methods
matchedFilter
for the new user interface.
xcmsRaw
,
do_findChromPeaks_matchedFilter
for the core function
performing the peak detection.
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