Description Usage Arguments Value Examples
View source: R/proteome_tools.R
normalizes proteome data by a Normalized Spectral Abundance Factor
using the protein length as specified by the length
parameter in the
tax_table
of a phyloseq object
The input otu_table
should contain proteomic count or intensity values from a mass spec.
1 |
ps |
A |
length |
A column in the |
This function returns the input phyloseq
object with a the otu_table()
normalized
by NSAF
.
The Normalized Spectral Abundance Factor was
proposed by Zybailov et al. (2006).
NSAF for a protein 'k' is the number of spectral counts ('SpC', the total number of MS/MS spectra)
identifying a protein, 'k', divided by the protein<e2><80><99>s length ('L'),
divided by the sum of 'SpC'/'L' for all 'N' proteins in the experiment.
1 | ps <- add_nsaf(ps)
|
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