getIBAQEset: Calculate intensity-based absolute-protein-quantification...

In eahrne/SafeQuant: A Toolbox for the Analysis of Proteomics Data

Description

Calculate intensity-based absolute-protein-quantification (iBAQ) metric per protein

Usage

getIBAQEset(eset, proteinDB = NA, peptideLength = c(5, 36),
  nbMiscleavages = 0, proteaseRegExp = .getProteaseRegExp("trypsin"))

Arguments

eset	protein level ExpressionSet
proteinDB	list protein sequneces
peptideLength	peptide length interval (to get number of peptides used for normalization)
nbMiscleavages	number of mis-cleavages allowed when digesting protein sequneces in silico (to get number of peptides used for normalization)
proteaseRegExp	protease Reg Exp cleavage rule

Details

No details

Value

ExpressionSet

Note

No note

References

Global quantification of mammalian gene expression control, Schwanhausser (2011), http://www.ncbi.nlm.nih.gov/pubmed/21593866, Critical assessment of proteome-wide label-free absolute abundance estimation strategies. Ahrne (2013), http://www.ncbi.nlm.nih.gov/pubmed/23794183

Examples

print("No examples")

eahrne/SafeQuant documentation built on April 8, 2021, 10:10 a.m.