Quasi-Sequence-Order (QSO) Descriptor

Source: R/internal_hyp.R

This function calculates the Quasi-Sequence-Order (QSO) descriptor with lag 12

QSOlevel(m)

Arguments

m

A vector of k-mers

Value

A matrix with the Quasi-Sequence-Order Descriptor (dim: 64)

Details

QSO descriptor is calculated based on two physicochemical distance matrices: Schneider-Wrede (Schneider and Wrede, 1994) and Grantham physicochemical distance matrix (Grantham, 1974)

Note

This is an internal function used inside predict_hyp

References

Kuo-Chen Chou. Prediction of Protein Subcellar Locations by Incorporating Quasi-Sequence-Order Effect. Biochemical and Biophysical Research Communications, 2000, 278, 477-483. 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 Cleavage Site. Biophys Journal, 1994, 66, 335-344.

See also

predict_hyp extractQSO

Author

original R code by Nan Xiao, modified by Milan Dragićević