guessOrganism: guessOrganism

In IFIproteomics/LFQbench: Label Free Quantitation benchmark package

guessOrganism

Description

this function uses Swissprot annotations i.e. QXXXXX_HUMAN to guess what's the species of the entry. The header (proteinid) may have several entries, and thus it can belong to several organisms. In that case, the function returns 'multiple'.

Usage

guessOrganism(proteinid, species)

Arguments

proteinid	char variable containing the Swissprot header.
species	vector defining the organisms that are part of the experiment. It is defined at fswe.datasets.R An example of species vector: species <- vector(mode="list", length=3) names(species) <- c("HUMAN", "YEAST", "ECOLI") species[[1]] <- "_HUMAN" species[[2]] <- "_YEAS" species[[3]] <- "_ECOLI"

IFIproteomics/LFQbench documentation built on March 2, 2023, 9:45 a.m.