hmm_GA {protHMM}

hmm_GA

Description

This feature calculates the Geary autocorrelation of each amino acid type for each distance d less than or equal to the lag value and greater than or equal to 1.

Usage

hmm_GA(hmm, lg = 9)

Arguments

hmm

The name of a profile hidden markov model file.

lg

The lag value, which indicates the distance between residues.

Value

A vector of length lg \times 20, by default this is 180.

Note

The lag value must be less than the length of the protein sequence

References

Liang, Y., Liu, S., & Zhang. (2015). Prediction of Protein Structural Class Based on Different Autocorrelation Descriptors of Position–Specific Scoring Matrix. MATCH: Communications in Mathematical and in Computer Chemistry, 73(3), 765–784.

Examples

h<- hmm_GA(system.file("extdata", "1DLHA2-7", package="protHMM"))