Description Usage Arguments Value
This function connects all MS2 scans belonging to a single feature within a single data sample. It returns the sweeperObj with a slot for the parent ions and a slot for the merged MS2s filled up. It also does a 13C correction of the MS2s if a 13C peak is detected within the parent ion's scan.
1 2 | harvestMS2(sweeperObj, ppm = 5, rtError = 15, isoWindow = 2,
cores = 3, clearData = TRUE, mzDiff = 0.5)
|
sweeperObj |
- object containing all MS2 data that will be mined. |
ppm |
- Error window for features. |
rtError |
- Time window to check for matches in rt betwee parent ions from XCMS and those from the MS2 fragment table. |
isoWindow |
- isolation window for MS2s |
cores |
- number of cores to use during harvest function. |
clearData |
- Boolean. Deletes raw data from sweepersObj. Good to reduce amount of memory taken up by sweeperObj. |
mzDiff |
- mz error window used to group peaks from spectra together. that belong to the same features but come in different scans. |
sweeperObj with slots for parents and daughters filled.
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