MetaboList (version 2.0)

plot_EIC: Plot an Extracted Ion Chromatogram (EIC)

Description

Plot an Extracted Ion Chromatogram (EIC) either from processed MS1 or MS/MS file with FullMS or AIF.

Usage

plot_EIC(fullms,peakID=333,ms=1,CE=0)

Arguments

fullms

A fullms or DIA file processed by FullMS or AIF.

peakID

Identity of the EIC desired to plot. The peakID is indicated in the ouput obtained with FullMS or AIF.

ms

numeric. MS level of EIC desired to plot.

CE

numeric. Collision energy for the file processed.

References

1. R-MetaboList: a flexible tool for metabolite extraction from high-resolution data-independent acquisition mass spectrometry analysis. Metabolites. Soon

2. A Survey of Orbitrap All Ion Fragmentation Analysis Assessed by an R MetaboList Package to Study Small-Molecule Metabolites. Chromatographia. 2018, 81, 981-994.

Examples

# NOT RUN {
library(MetaboList)
#Reading the file.mzXML
# file<-fullMS.mzXML

#Reading the database.csv file:
# database<- read.csv("C:/FullMS1.csv")

#Processing peak-picking and annotation with default parameters
# FullMS_results<-FullMS(file,database, ion_mode = "positive",)

#Output:
#FullMS_results$ms

#plot_EIC(fullmsposH,peakID=413)


# }