summarizeIntensities: Summarizes peptides intensities to proteins

In qPLEXanalyzer: Tools for qPLEX-RIME data analysis

Description

Summarizes multiple peptides intensities measurements to protein level.

Usage

summarizeIntensities(MSnSetObj, summarizationFunction, annotation)

Arguments

MSnSetObj	MSnSet; an object of class MSnSet
summarizationFunction	function; method used to aggregate the peptides into proteins. Sum, mean or median
annotation	data.frame; a data.frame of protein annotation of four columns: "Accessions", "Gene", "Description" and "GeneSymbol"

Value

An object of class MSnSet (see MSnSet-class)

Examples

data(human_anno)
data(exp3_OHT_ESR1)
MSnSet_data <- convertToMSnset(exp3_OHT_ESR1$intensities_qPLEX1, 
                               metadata=exp3_OHT_ESR1$metadata_qPLEX1,
                               indExpData=c(7:16), 
                               Sequences=2, 
                               Accessions=6)
MSnset_P <- summarizeIntensities(MSnSet_data, sum, human_anno)

qPLEXanalyzer documentation built on Feb. 3, 2021, 2:01 a.m.