trigrame_pssm: trigrame feature vector

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

Description

This feature vector is 8000-dimentional feature vector wich is computed from tri-gram probability matrix T obtained from PSSM Matrix.to achieve this purpose elements in three successive rows and arbitrary columns are multiplied together then these results are added together by changing variable i from 1 to L-1, which i is counter of row and L indicates protein length. since there are 20 columns thus final feature vector would be of length 8000.

Usage

trigrame_pssm(pssm_name)

Arguments

pssm_name

name of PSSM Matrix file

Value

feature vector of lenght 8000

References

Paliwal, K.K., et al. (2014) A tri-gram based feature extraction technique using linear probabilities of position specific scoring matrix for protein fold recognition, IEEE transactions on nanobioscience, 13, 44-50

Examples

X<-trigrame_pssm(paste0(system.file("extdata",package="PSSMCOOL"),"/C7GSI6.txt.pssm"))

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