pepAgregate {DAPAR} | R Documentation

## Function agregate peptides to proteins

### Description

Method to agregate with a method peptides to proteins on a `MSnSet` object (peptides)

### Usage

    pepAgregate(obj.pep, protID, method = "sum overall", matAdj = NULL,
      n = NULL)

### Arguments

`obj.pep` | An object (peptides) of class `MSnSet`.
`protID` | The name of proteins ID column
`method` | The method used to aggregate the peptides into proteins. Values are "sum", "mean" or "sum on top n" : do the sum / mean of intensity on all peptides belonging to proteins. Default is "sum"
`matAdj` | An adjacency matrix
`n` | The number of peptides considered for the aggregation.

### Value

An object of class `MSnSet` with proteins

### Author(s)

Alexia Dorffer, Samuel Wieczorek

### Examples

    require(DAPARdata)
    data(Exp1_R25_pept)
    protID <- "Protein.group.IDs"
    mat <- BuildAdjacencyMatrix(Exp1_R25_pept[1:1000], protID, TRUE)
    pepAgregate(Exp1_R25_pept[1:1000], protID, "sum overall", mat)

[Package DAPAR version 1.12.11 Index]