CAMERA (version 1.28.0)

getPeaklist: Generate the annotatad peaklist

Description

Extract all information from an xsAnnotate object. Returns a peaklist with annotated peaks.

Usage

getPeaklist(object, intval="into")

Arguments

object

xsAnnotate object

intval

Choose intensity values. Allowed values are into, maxo, intb

Details

This function extract the peaktable from an xsAnnotate object, containing three additional columns (isotopes, adducts, pseudospectrum) with represents the annotation results. For a grouped xcmsSet it returns the grouped peaktable.

Examples

library(CAMERA)
file <- system.file('mzdata/MM14.mzdata', package = "CAMERA")
xs   <- xcmsSet(file, method="centWave", ppm=30, peakwidth=c(5,10))
an   <- xsAnnotate(xs)
an   <- groupFWHM(an)
an   <- findIsotopes(an)
an   <- findAdducts(an,polarity="positive")
peaklist <- getPeaklist(an)