calculate.dNSAF: dNSAF approximate abundance calculations.

In fbreitwieser/isobar: Analysis and quantitation of isobarically tagged MSMS proteomics data

Description

Distributed normalized spectral abundance factor (dNSAF) is a label free quantitative measure of protein abundance based on spectral counts which are corrected for peptides shared by multiple proteins. Original publication: Zhang Y et al., Analytical Chemistry (2010).

Usage

calculate.dNSAF(protein.group, use.mw = FALSE, normalize = TRUE,
                combine.f = mean)

Arguments

protein.group	ProteinGroup object. Its @proteinInfo slot data.frame must contain a length column.
use.mw	Use MW to account for protein size
normalize	Normalize dSAF to dNSAF?
combine.f	How to handle proteins seen only with shared peptides?

Value

Named numeric vector of dNSAF values.

Author(s)

Florian P Breitwieser

References

Zhang Y et al., Analytical Chemistry (2010)

See Also

proteinInfo, getProteinInfoFromUniprot, calculate.emPAI, ProteinGroup

Examples

data(ibspiked_set1)
protein.group <- proteinGroup(ibspiked_set1)
calculate.dNSAF(protein.group)

fbreitwieser/isobar documentation built on May 16, 2019, 12:01 p.m.