proteoQC (version 1.8.2)

proteinGroup: Protein inference

Description

Protein inference

Usage

proteinGroup(file = NULL, db = "", pepColName = "peptide",
  proColName = "protein", spectrumColName = "index", proSep = ";",
  outfile = NULL, xmx = 1)

Arguments

file

A file containing the information of peptides to proteins.

db

A protein database of fasta format.

pepColName

The column name of peptide sequence.

proColName

The column name of protein ID.

spectrumColName

The column name of spectrum index.

proSep

The separator of protein ID, default is "".

outfile

The output file name of protein group result.

xmx

JAVA -Xmx, default is 1.

Examples

pep.zip <- system.file("extdata/pep.zip", package = "proteoQC")
unzip(pep.zip)
proteinGroup(file = "pep.txt", outfile = "pg.txt")