| DDA_fragmentationPeakDetection {IDSL.CSA} | R Documentation |
DDA Fragmentation Peaks Detection
Description
This function detects fragmentation peaks for the Data-Dependent Acquisition (DDA) analysis.
Usage
DDA_fragmentationPeakDetection(DDA_hrms_address, DDA_hrms_file, peaklist,
selectedIPApeaks, massErrorPrecursor, DDAprocessingMode = 'MostIntenseDDAspectra',
outputDDAspectra = NULL, number_processing_threads = 1)
Arguments
DDA_hrms_address |
path to the HRMS file |
DDA_hrms_file |
DDA HRMS file |
peaklist |
IDSL.IPA peaklist |
selectedIPApeaks |
A vector of selected IDSL.IPA peaks only when a number of IDSL.IPA peaks from one peaklist is processed. |
massErrorPrecursor |
Mass accuracy (Da) to find precursor m/z in IDSL.IPA peaklists |
DDAprocessingMode |
c('MostIntenseDDAspectra', c('DDAspectraIntegration', massErrorIntegration), c('IonFiltering', massErrorIonFiltering, minPercentageDetectedScans, rsdCutoff, pearsonRHOthreshold)). Required variables for each DDA processing mode should be provided in this vector. |
outputDDAspectra |
When 'NULL' DDA spectra are not plotted. 'outputDDAspectra' represents an address to save DDA spectra figures. |
number_processing_threads |
Number of processing threads for multi-threaded processing |
Value
A dataframe peaklist of co-detected DDA analysis.