subtract-purityD-method: Using Subtract MZ values based on ppm tolerance and noise...

subtract,purityD-methodR Documentation

Using Subtract MZ values based on ppm tolerance and noise ratio

Description

Uses a purityD object with references to multiple MS files. Subtract blank peaks from the sample peaks see subtractMZ for more information

Usage

## S4 method for signature 'purityD'
subtract(
  Object,
  byClass = TRUE,
  mapping = c("sample", "blank"),
  ppm = 5,
  s2bthres = 10
)

Arguments

Object

object; purityD object

byClass

boolean; subtract within each class

mapping

parameter not functional (TODO)

ppm

numeric = ppm tolerance

s2bthres

numeric = threshold for the samp2blank (i1/i2)

Value

purityD object with averaged spectra

See Also

subtractMZ

Examples

datapth <- system.file("extdata", "dims", "mzML", package="msPurityData")
inDF <- Getfiles(datapth, pattern=".mzML", check = FALSE, cStrt = FALSE)

ppDIMS <- purityD(inDF, cores=1)
ppDIMS <- averageSpectra(ppDIMS)
ppDIMS <- filterp(ppDIMS, thr = 5000)
ppDIMS <- subtract(ppDIMS)

computational-metabolomics/msPurity documentation built on May 13, 2024, 7:36 p.m.