R/101_deprecated_functions.R
identify_single_peak.RdWe can use this function to identify single peak, you can just provide m/z or rt, or you can also provide MS2 spectrum for this peak.
identify_single_peak(
ms1.mz,
ms1.rt,
ms2,
ms1.match.ppm = 25,
ms2.match.ppm = 30,
mz.ppm.thr = 400,
ms2.match.tol = 0.5,
fraction.weight = 0.3,
dp.forward.weight = 0.6,
dp.reverse.weight = 0.1,
rt.match.tol = 30,
polarity = c("positive", "negative"),
ce = "all",
column = c("hilic", "rp"),
ms1.match.weight = 0.25,
rt.match.weight = 0.25,
ms2.match.weight = 0.5,
path = ".",
total.score.tol = 0.5,
candidate.num = 3,
database,
threads = 3
)m/z value of the peaks
rt value of the peaks
MS2 spectra of the peaks. It must be a two column data frame, the first column is m/z and the second column is the intensity.
Precursor match ppm tolerance.
Fragment ion match ppm tolerance.
Accurate mass tolerance for m/z error calculation.
MS2 match (MS2 similarity) tolerance.
The weight for matched fragments.
Forward dot product weight.
Reverse dot product weight.
RT match tolerance.
The polarity of data, "positive"or "negative".
Collision energy. Please confirm the CE values in your database. Default is "all".
"hilic" (HILIC column) or "rp" (reverse phase).
The weight of MS1 match for total score calculation.
The weight of RT match for total score calculation.
The weight of MS2 match for total score calculation.
Work directory.
Total score tolerance. The total score are refering to MS-DIAL.
The number of candidate.
MS2 database name.
Number of threads
A metIdentifyClass object.