BuildColumnToProteinDataset: creates a column for the protein dataset after agregation by...

In prostarproteomics/DAPAR: Tools for the Differential Analysis of Proteins Abundance with R

creates a column for the protein dataset after agregation by using the previous peptide dataset.

Description

This function creates a column for the protein dataset after aggregation by using the previous peptide dataset.

Usage

BuildColumnToProteinDataset(peptideData, matAdj, columnName, proteinNames)

Arguments

peptideData	A data.frame of meta data of peptides. It is the fData of the MSnset object.
matAdj	The adjacency matrix used to agregate the peptides data.
columnName	The name of the column in Biobase::fData(peptides_MSnset) that the user wants to keep in the new protein data.frame.
proteinNames	The names of the protein in the new dataset (i.e. rownames)

Value

A vector

Author(s)

Samuel Wieczorek

Examples

data(Exp1_R25_pept, package="DAPARdata")
protID <- "Protein_group_IDs"
obj.pep <- Exp1_R25_pept[seq_len(10)]
M <- BuildAdjacencyMatrix(obj.pep, protID, FALSE)
data <- Biobase::fData(obj.pep)
protData <- aggregateMean(obj.pep, M)
name <- "Protein_group_IDs"
proteinNames <- rownames(Biobase::fData(protData$obj.prot))
new.col <- BuildColumnToProteinDataset(data, M, name, proteinNames)

prostarproteomics/DAPAR documentation built on Nov. 26, 2024, 6:32 p.m.