Reset FIR windows to uROI or ROI values Reset FIR windows to uROI (or ROI if uROIExist=FALSE)

Reset FIR windows to uROI or ROI values Reset FIR windows to uROI (or ROI if uROIExist=FALSE)

# S4 method for peakPantheRAnnotation
resetFIR(object, verbose)

Arguments

object

(peakPantheRAnnotation) object for which FIR are to be reset

verbose

(bool) If TRUE message progress

Value

(peakPantheRAnnotation) object with FIR values reset

Examples

## Initialise a peakPantheRAnnotation object with 2 targeted compounds

## targetFeatTable
input_targetFeatTable <- data.frame(matrix(vector(), 2, 8,
                            dimnames=list(c(), c('cpdID', 'cpdName', 'rtMin',
                            'rt', 'rtMax', 'mzMin', 'mz', 'mzMax'))),
                            stringsAsFactors=FALSE)
input_targetFeatTable[1,] <- c('ID-1', 'Cpd 1',  3.,  1.,  4.,  5.,  2.,  6.)
input_targetFeatTable[2,] <- c('ID-2', 'Cpd 2', 19., 17., 20., 21., 18., 22.)
input_targetFeatTable[,c(3:8)] <- sapply(input_targetFeatTable[,c(3:8)],
                                        as.numeric)
## FIR
input_FIR       <- data.frame(matrix(vector(), 2, 4, dimnames=list(c(), 
                                c('rtMin', 'rtMax', 'mzMin', 'mzMax'))),
                                stringsAsFactors=FALSE)
input_FIR[1,]   <- c(13., 14., 15., 16.)
input_FIR[2,]   <- c(29., 30., 31., 32.)

annotation <- peakPantheRAnnotation(targetFeatTable = input_targetFeatTable,
                                    FIR = input_FIR, uROIExist = FALSE)

## Reset FIR with ROI values as uROI are not set
updatedAnnotation <- resetFIR(annotation, verbose=TRUE)
#> FIR will be reset with ROI values as uROI values are not set
# FIR will be reset with ROI values as uROI values are not set