extractCTDT: CTD Descriptors - Transition

Description Usage Arguments Value Note Author(s) References See Also Examples

Description

This function calculates the Transition descriptor of the CTD descriptors (dim: 21).

Usage

1

Arguments

x

A character vector, as the input protein sequence.

Value

A length 21 named vector

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.

Author(s)

Nan Xiao <https://nanx.me>

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 extractCTDC and extractCTDD for Composition and Distribution of the CTD descriptors.

Examples

1
2
x <- readFASTA(system.file("protseq/P00750.fasta", package = "protr"))[[1]]
extractCTDT(x)

Example output

prop1.Tr1221 prop1.Tr1331 prop1.Tr2332 prop2.Tr1221 prop2.Tr1331 prop2.Tr2332 
  0.27094474   0.16042781   0.23351159   0.26737968   0.22638146   0.17112299 
prop3.Tr1221 prop3.Tr1331 prop3.Tr2332 prop4.Tr1221 prop4.Tr1331 prop4.Tr2332 
  0.21033868   0.20499109   0.23707665   0.27272727   0.15151515   0.24598930 
prop5.Tr1221 prop5.Tr1331 prop5.Tr2332 prop6.Tr1221 prop6.Tr1331 prop6.Tr2332 
  0.18181818   0.02139037   0.15686275   0.21925134   0.22816399   0.15864528 
prop7.Tr1221 prop7.Tr1331 prop7.Tr2332 
  0.25133690   0.21568627   0.18003565 

protr documentation built on May 18, 2019, 9:02 a.m.