FPSSM: D-FPSSM and SF-PSSM feature vectors

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

Description

This function produces list of two feature vectors named D-FPSSM and S-FPSSM which then used by FPSSM2 function to construct feature vector of length 100 for each pair of proteins which then used for protein-protein interaction prediction in each dataset.

Usage

FPSSM(pssm_name, hk = 20)

Arguments

pssm_name	name of PSSM Matrix file
hk	a parameter that indicates which amino acid alphabet must be used

Value

two feature vectors of different length which is used in later steps.

References

Zahiri, J., et al. (2013) PPIevo: protein-protein interaction prediction from PSSM based evolutionary information, Genomics, 102, 237-242.

Examples

X<-FPSSM(system.file("extdata","C7GQS7.txt.pssm",package="PSSMCOOL"),20)

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