filter_on_max_peptides {SWATH2stats} | R Documentation

## Filter only for the highest intense peptides

### Description

In order to reduce the data, the data is filtered only for the proteins with the highest intensity peptides.

### Usage

    filter_on_max_peptides(data, n_peptides, rm.decoy = TRUE)

### Arguments

`data` | A data frame containing SWATH data with the column names: ProteinNames, PeptideSequence, PrecursorCharge, Intensity.
`n_peptides` | Maximum number of highest intense peptides to filter the data on.
`rm.decoy` | Option to remove the decoys during filtering.

### Value

Returns a data frame of the filtered data

### Author(s)

Peter Blattmann

### Examples

    data("OpenSWATH_data", package="SWATH2stats")
    data("Study_design", package="SWATH2stats")
    data <- sample_annotation(OpenSWATH_data, Study_design)
    data.filtered <- filter_mscore_freqobs(data, 0.01,0.8)
    data.max <- filter_on_max_peptides(data.filtered, 5)

[Package SWATH2stats version 1.10.2 Index]