This function calculates the Composition descriptor of the CTD descriptors (dim: 21).
Note
For this descriptor type, users need to intelligently evaluate the underlying details of the descriptors provided, instead of using this function with their data blindly. It would be wise to use some negative and positive control comparisons where relevant to help guide interpretation of the results.
References
Inna Dubchak, Ilya Muchink, Stephen R. Holbrook and Sung-Hou Kim. Prediction of protein folding class using global description of amino acid sequence. Proceedings of the National Academy of Sciences. USA, 1995, 92, 8700-8704.
Inna Dubchak, Ilya Muchink, Christopher Mayor, Igor Dralyuk and Sung-Hou Kim. Recognition of a Protein Fold in the Context of the SCOP classification. Proteins: Structure, Function and Genetics, 1999, 35, 401-407.
See also
See extractCTDT and extractCTDD
for Transition and Distribution of the CTD descriptors.
Author
Nan Xiao <https://nanx.me>
Examples
x <- readFASTA(system.file("protseq/P00750.fasta", package = "protr"))[[1]]
extractCTDC(x)
#> hydrophobicity.Group1 hydrophobicity.Group2 hydrophobicity.Group3
#> 0.29715302 0.40569395 0.29715302
#> normwaalsvolume.Group1 normwaalsvolume.Group2 normwaalsvolume.Group3
#> 0.45195730 0.29715302 0.25088968
#> polarity.Group1 polarity.Group2 polarity.Group3
#> 0.33985765 0.33274021 0.32740214
#> polarizability.Group1 polarizability.Group2 polarizability.Group3
#> 0.33096085 0.41814947 0.25088968
#> charge.Group1 charge.Group2 charge.Group3
#> 0.11032028 0.79003559 0.09964413
#> secondarystruct.Group1 secondarystruct.Group2 secondarystruct.Group3
#> 0.38967972 0.29537367 0.31494662
#> solventaccess.Group1 solventaccess.Group2 solventaccess.Group3
#> 0.43060498 0.29715302 0.27224199