isobar (version 1.18.0)

calculate.dNSAF: dNSAF approximate abundance calculations.

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.

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)