getpeaks2: getpeaks2

In mjhelf/Mosaic: Metaboseek platform

getpeaks2

Description

find and then merge peaks for an EIC object. wrapper function for find_peaks2() and mergepeaks2()

Usage

getpeaks2(
  EIC,
  findProps = list(SN = 1, minwidth = 4, localNoise = 7, localNoiseFactor = 0.5,
    globalNoiseFactor = 0.5, extend = T),
  mergeProps = list(rttol = 3, minint = 0, minrelint = 0, topN = 100)
)

Arguments

EIC	a single EIC object (list item of multiEIC output), or a list of EIC items (multiEIC output)
findProps	named list of arguments passed to find_peaks2()
mergeProps	named list of arguments passed to mergepeaks2()

Details

Columns of the returned data.table:

• rt retention time of peak maximum, average across merged peaks, weighted by peak intensity

• rtmin retention time of peak start, average across merged peaks, weighted by peak intensity

• rtmax retention time of peak end, average across merged peaks, weighted by peak intensity

• maxint maximum intensity of peak

• file file names, separated by "|"

Value

a data.frame with information on peak position in EICs, or a list of such data.frames if EIC is a list of EIC matrices (e.g. EICs for multiple mz values)

mjhelf/Mosaic documentation built on April 28, 2022, 11:32 a.m.