k_separated_bigrams_pssm {PSSMCOOL}

k_separated_bigrams_pssm feature vector

Description

This feature is almost identical to the dpc_pssm feature, and in fact the DPC feature is part of this feature (for k=1) and for two different columns, considers rows that differ by the size of the unit k.

Usage

k_separated_bigrams_pssm(pssm_name, k = 1)

Arguments

pssm_name

is name of PSSM Matrix file

k

a parameter that specifies separated length between amino acids

Value

a feature vector of length 400

References

Saini, H., et al.(2016) Protein Fold Recognition Using Genetic Algorithm Optimized Voting Scheme and Profile Bigram.

Examples

 X<-k_separated_bigrams_pssm(system.file("extdata", "C7GQS7.txt.pssm", package="PSSMCOOL"),1)