Profiling paramters

Initiate default processing parameters for a given profiling technique.

Usage

profileParameters(technique)

Arguments

technique

the profiling technique for which to initiate parameters

Value

An S4 object of class ProfileParameters.

See also

availableTechniques, ProfileParameters-class, profileProcess

Examples

profileParameters('LCMS-RP')
#> Processing parameters for technique LCMS-RP 
#> 
#> info:
#> name class 
#> 
#> peakDetection:
#> Object of class:  CentWaveParam 
#>  Parameters:
#>  - ppm: [1] 8.2
#>  - peakwidth: [1] 16 43
#>  - snthresh: [1] 7
#>  - prefilter: [1]   3 100
#>  - mzCenterFun: [1] "apex"
#>  - integrate: [1] 2
#>  - mzdiff: [1] 0.001
#>  - fitgauss: [1] FALSE
#>  - noise: [1] 0
#>  - verboseColumns: [1] FALSE
#>  - roiList: list()
#>  - firstBaselineCheck: [1] TRUE
#>  - roiScales: numeric(0)
#>  - extendLengthMSW: [1] FALSE
#> 
#> retentionTimeCorrection:
#> Object of class:  ObiwarpParam 
#>  Parameters:
#>  - binSize: [1] 0.7
#>  - centerSample: integer(0)
#>  - response: [1] 1
#>  - distFun: [1] "cor_opt"
#>  - gapInit: [1] 2.9
#>  - gapExtend: [1] 2.7
#>  - factorDiag: [1] 2
#>  - factorGap: [1] 1
#>  - localAlignment: [1] FALSE
#>  - initPenalty: [1] 0
#>  - subset: integer(0)
#>  - subsetAdjust: [1] "average"
#> 
#> grouping:
#> Object of class:  PeakDensityParam 
#>  Parameters:
#>  - sampleGroups: [1] "class"
#>  - bw: [1] 1
#>  - minFraction: [1] 0.6666667
#>  - minSamples: [1] 1
#>  - binSize: [1] 0.00775
#>  - maxFeatures: [1] 50
#> 
#> infilling:
#> Object of class:  FillChromPeaksParam 
#>  Parameters:
#>  - expandMz: [1] 0
#>  - expandRt: [1] 0
#>  - ppm: [1] 0
#>  - fixedMz: [1] 0
#>  - fixedRt: [1] 0
#>