extractSOCN: Sequence-Order-Coupling Numbers

In protr: Generating Various Numerical Representation Schemes for Protein Sequences

Sequence-Order-Coupling Numbers

Description

This function calculates the Sequence-Order-Coupling Numbers (dim: nlag * 2, default is 60).

Usage

extractSOCN(x, nlag = 30)

Arguments

x	A character vector, as the input protein sequence.
nlag	The maximum lag, defualt is 30.

Value

A length nlag * 2 named vector

Author(s)

Nan Xiao <https://nanx.me>

References

Kuo-Chen Chou. Prediction of Protein Subcellar Locations by Incorporating Quasi-Sequence-Order Effect. Biochemical and Biophysical Research Communications, 2000, 278, 477-483.

Kuo-Chen Chou and Yu-Dong Cai. Prediction of Protein Sucellular Locations by GO-FunD-PseAA Predictor. Biochemical and Biophysical Research Communications, 2004, 320, 1236-1239.

Gisbert Schneider and Paul Wrede. The Rational Design of Amino Acid Sequences by Artifical Neural Networks and Simulated Molecular Evolution: Do Novo Design of an Idealized Leader Cleavge Site. Biophys Journal, 1994, 66, 335-344.

See Also

See extractQSO for quasi-sequence-order descriptors.

Examples

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

protr documentation built on Sept. 12, 2024, 6:44 a.m.