resetFIR,peakPantheRAnnotation-method {peakPantheR} | R Documentation

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

### Description

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

### Usage

    ## S4 method for signature '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

[Package peakPantheR version 1.4.0 Index]