MSstatsImport: Import files from signal processing tools.

In Vitek-Lab/MSstatsConvert: Import Data from Various Mass Spectrometry Signal Processing Tools to MSstats Format

Import files from signal processing tools.

Description

Import files from signal processing tools.

Usage

MSstatsImport(input_files, type, tool, tool_version = NULL, ...)

Arguments

input_files	list of paths to input files or data.frame objects. Interpretation of this parameter depends on values of parameters type and tool.
type	chr, "MSstats" or "MSstatsTMT".
tool	chr, name of a signal processing tool that generated input files.
tool_version	not implemented yet. In the future, this parameter will allow handling different versions of each signal processing tools.
...	optional additional parameters to data.table::fread.

Value

an object of class MSstatsInputFiles.

Examples

evidence_path = system.file("tinytest/raw_data/MaxQuant/mq_ev.csv", 
                            package = "MSstatsConvert")
pg_path = system.file("tinytest/raw_data/MaxQuant/mq_pg.csv", 
                      package = "MSstatsConvert")
evidence = read.csv(evidence_path)
pg = read.csv(pg_path)
imported = MSstatsImport(list(evidence = evidence, protein_groups = pg),
                         "MSstats", "MaxQuant")
class(imported)
head(getInputFile(imported, "evidence"))

Vitek-Lab/MSstatsConvert documentation built on Dec. 17, 2024, 1:14 a.m.