Description Usage Arguments Details Value Author(s) References See Also Examples
Calculation of physicochemical amino acid properties for APEX.
1 2 3 4 | ## Default S3 method:
apexFeatures(x, ...)
## S3 method for class 'apexFeatures'
print(x, ...)
|
x |
a mandatory data frame containing the variables in the model.
The data frame requires the columns |
... |
future extensions. |
The apexFeatures function computes the APEX or PeptideSieve features (Mallick et al., 2006; Vogel et al., 2008) based on AAindex (Kawashima et al., 2008) and returns them in an apexFeatures object for further usage in the APEX
module.
An object of class apexFeatures
.
George Rosenberger gr2578@cumc.columbia.edu
Kawashima, S. et al. AAindex: amino acid index database, progress report 2008. Nucleic Acids Research 36, D202-5 (2008).
Mallick, P. et al. Computational prediction of proteotypic peptides for quantitative proteomics. Nat Biotech 25, 125-131 (2006).
Vogel, C. & Marcotte, E. M. Calculating absolute and relative protein abundance from mass spectrometry-based protein expression data. Nat Protoc 3, 1444-1451 (2008).
import
, ProteinInference
, AbsoluteQuantification
, ALF
, APEX
, proteotypic
1 2 3 4 5 6 7 8 9 10 11 |
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