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

View source: R/agregation.R

BuildColumnToProteinDatasetR Documentation

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 Oct. 11, 2024, 12:03 p.m.