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

Description Usage Arguments Details Value Note References Examples

Description

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

Usage

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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

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print("No examples")


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