intensity_plot: 'intensity_plot' output graph of intensity of amino acid.

In faye-yang/MSPTM: R Package of visualization of PTM of Mass spetrometry analysis

Description

intensity_plot output graph of intensity of amino acid.

Usage

intensity_plot(data, modification, mZmarker_ions, search_engine)

Arguments

data	mass spetrometry information for the peptide
modification	contain modification information , intensity of ion, amino acide that is modified
mZmarker_ions	maker ion
search_engine	can be Mascot or Tandem

Examples

modification<-data.frame("type"=c("Carbamidomethyl","Oxidation"),
"monomass"=c(57.022, 16.0), "AA"=c("C","M"))
result.file <- "/Users/yufei/Desktop/2018fall/BCB410/MSPTM/inst/extdata/output_mouse.2018_12_04_19_57_17.t.xml"
uids<-c(12,2,731)
library(rTANDEM)
result <- GetResultsFromXML(result.file)
data<-tandem_get_data(result,modification,uids)
intensity_plot(data,modification,mZmarker_ions, search_engine="Tandem")

faye-yang/MSPTM documentation built on May 21, 2019, 4:05 a.m.