dpc_pssm: DPC_PSSM feature vector

In PSSMCOOL: Features Extracted from Position Specific Scoring Matrix (PSSM)

Description

This Feature stands for dipeptide composition, to get this feature vector for both different columns the elements in two consecutive rows corresponds to this columns, would be multiplied and this scenario is done for all L-1 consecutive rows (L is protein length) and finally summation of these numbers divides by L-1. since the result depends on two different columns, eventually a Feature vector of length 400 will be obtained.

Usage

dpc_pssm(pssm_name)

Arguments

pssm_name

name of PSSM Matrix file

Value

feature vector of length 400

References

Liu, T., Zheng, X. and Wang, J. (2010) Prediction of protein structural class for low-similarity sequences using support vector machine and PSI-BLAST profile, Biochimie, 92, 1330-1334.

Examples

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

PSSMCOOL documentation built on Jan. 4, 2022, 5:07 p.m.