protFP: Compute the protFP descriptors of a protein sequence
In Peptides: Calculate Indices and Theoretical Physicochemical Properties of Protein Sequences
protFP R Documentation
Compute the protFP descriptors of a protein sequence
Description
The ProtFP descriptor set was constructed from a large initial selection of indices obtained from the AAindex database for all 20 naturally occurring amino acids.
Usage
protFP(seq)
Arguments
seq
An amino-acids sequence
Value
The computed average of protFP descriptors of all the amino acids in the corresponding peptide sequence.
References
van Westen, G. J., Swier, R. F., Wegner, J. K., IJzerman, A. P., van Vlijmen, H. W., & Bender, A. (2013). Benchmarking of protein descriptor sets in proteochemometric modeling (part 1): comparative study of 13 amino acid descriptor sets. Journal of cheminformatics, 5(1), 41.
Examples
protFP(seq = "QWGRRCCGWGPGRRYCVRWC")
# [[1]]
# ProtFP1 ProtFP2 ProtFP3 ProtFP4 ProtFP5 ProtFP6 ProtFP7 ProtFP8
# 0.2065 -0.0565 1.9930 -0.2845 0.7315 0.7000 0.1715 0.1135
Peptides documentation built on May 29, 2024, 11:02 a.m.
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| protFP | R Documentation |
Compute the protFP descriptors of a protein sequence
Description
The ProtFP descriptor set was constructed from a large initial selection of indices obtained from the AAindex database for all 20 naturally occurring amino acids.
Usage
protFP(seq)
Arguments
seq |
An amino-acids sequence |
Value
The computed average of protFP descriptors of all the amino acids in the corresponding peptide sequence.
References
van Westen, G. J., Swier, R. F., Wegner, J. K., IJzerman, A. P., van Vlijmen, H. W., & Bender, A. (2013). Benchmarking of protein descriptor sets in proteochemometric modeling (part 1): comparative study of 13 amino acid descriptor sets. Journal of cheminformatics, 5(1), 41.
Examples
protFP(seq = "QWGRRCCGWGPGRRYCVRWC")
# [[1]]
# ProtFP1 ProtFP2 ProtFP3 ProtFP4 ProtFP5 ProtFP6 ProtFP7 ProtFP8
# 0.2065 -0.0565 1.9930 -0.2845 0.7315 0.7000 0.1715 0.1135
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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