scsh2: SCSH Feature vector

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

Description

This function gets a PSSM Matrix as input and extracts corresponding protein and consunsus sequence from it. By placing these two vectors next to each other, a dataframe is created. In each row of this dataframe, each component is connected to the next row components by an arrow. so a directed graph is produced. next by use of previous functions a feature vector of length 400 or 8000 is created.

Usage

scsh2(pssm_name, k = 2)

Arguments

pssm_name	is name of PSSM Matrix file
k	a parameter indicates length of k-mer

Value

feature vector of length 400 or 8000

References

Zahiri, J., et al., LocFuse: human protein–protein interaction prediction via classifier fusion using protein localization information. Genomics, 2014. 104(6): p. 496-503.

Examples

X<- scsh2(system.file("extdata","C7GRQ3.txt.pssm",package="PSSMCOOL"),2)

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