filter_proteotypic_peptides: Filter for proteins that are supported by proteotypic...

Description Usage Arguments Value Author(s) Examples

View source: R/filter_proteotypic_peptides.R

Description

Peptides can match to several proteins. With this function proteotypic peptides, peptides that are only contained in one protein are selected. Additionally the number of proteins are counted and printed.

Usage

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Arguments

data

A data frame containing SWATH data.

rm.decoy

Option to remove the decoys during filtering.

Value

Returns a data frame with only the data supported by proteotypic peptides.

Author(s)

Peter Blattmann

Examples

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data("OpenSWATH_data", package="SWATH2stats")
data("Study_design", package="SWATH2stats")
data <- sample_annotation(OpenSWATH_data, Study_design)
data.filtered.decoy <- filter_mscore(data, 0.01) 
data.all <- filter_proteotypic_peptides(data.filtered.decoy)

SWATH2stats documentation built on Nov. 17, 2017, 9:10 a.m.