MSstatsMakeAnnotation: Create annotation

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

Create annotation

Description

Create annotation

Usage

MSstatsMakeAnnotation(input, annotation, ...)

Arguments

input	data.table preprocessed by the MSstatsClean function
annotation	data.table
...	key-value pairs, where keys are names of columns of annotation

Value

data.table

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")
cleaned_data = MSstatsClean(imported, protein_id_col = "Proteins")
annot_path = system.file("tinytest/raw_data/MaxQuant/annotation.csv", 
                         package = "MSstatsConvert")
mq_annot = MSstatsMakeAnnotation(cleaned_data, read.csv(annot_path),
                                 Run = "Rawfile")
head(mq_annot)

Vitek-Lab/MSstatsConvert documentation built on Nov. 21, 2024, 12:23 p.m.