PSSMCOOL (version 0.2.4)

PSSM_SD: PSSM-SD feature

Description

In this feature, by considering a specific column, at first sum of all components in this column is denoted by "L", then starting from the first row in this column, the components are added together to reaching a value less than or equal to 25 is calculated and stored . In the next step, the same work is done starting from the first row to reaching a value less than or equal to 50 is done started from the last row, To reaching 25 By appending these saved numbers together for each column, a vector of length 4 is obtained. If this is done for all the columns and the obtained vectors are connected to each other, for each protein, a feature vector of length 80 is obtained which its name is PSSM-SD.

Usage

PSSM_SD(pssm_name)

Arguments

pssm_name

name of PSSM Matrix file

Value

feature vector of length 80

References

A. Dehzangi, K. Paliwal, J. Lyons, A. Sharma, A. J. I. A. T. o. C. B. Sattar, and Bioinformatics, "A segmentation-based method to extract structural and evolutionary features for protein fold recognition," vol. 11, no. 3, pp. 510-519, 2014.

Examples

# NOT RUN {
X<-PSSM_SD(system.file("extdata", "C7GQS7.txt.pssm", package="PSSMCOOL"))
# }