grey_pssm_pseAAC: grey pssm feature vector

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

Description

This function produces a feature vector of length 100 which the first 20 components of this vector is the normalized occurrence frequency of the native amino acids in the protein. the next 20 components are mean of 20 PSSM columns and grey system model approach as elaborated in (Min et al. 2013) is used to define the next 60 components.

Usage

grey_pssm_pseAAC(pssm_name)

Arguments

pssm_name

name of PSSM matrix file

Value

feature vector of length 100

References

J.-L. Min, X. Xiao, and K.-C. J. B. r. i. Chou, "iEzy-Drug: A web server for identifying the interaction between enzymes and drugs in cellular networking," vol. 2013, 2013.

X. Xiao, M. Hui, and Z. J. T. J. o. m. b. Liu, "IAFP-Ense: an ensemble classifier for identifying antifreeze protein by incorporating grey model and PSSM into PseAAC," vol. 249, no. 6, pp. 845-854, 2016.

M. Kabir et al., "Improving prediction of extracellular matrix proteins using evolutionary information via a grey system model and asymmetric under-sampling technique," vol. 174, pp. 22-32, 2018.

Examples

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

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