PSSMCOOL (version 0.2.4)

AB_PSSM: AB-PSSM feature vector

Description

to get This feature at first, each protein sequence is divided into 20 equal parts, each of which is called a block, and in each block the row vectors of the PSSM matrix related to that block are added together and The resulting final vector is divided by the length of that block, which is 5 Finally, by placing these 20 vectors side by side, feature vector of length 400 is obtained.

Usage

AB_PSSM(pssm_name)

Arguments

pssm_name

name of PSSM Matrix file

Value

AB-PSSM feature vector of length 400

References

Jeong, J.C., Lin, X. and Chen, X.W. (2011) On position-specific scoring matrix for protein function prediction , IEEE/ACM transactions on computational biology and bioinformatics / IEEE, ACM, 8, 308-315.

Examples

# NOT RUN {
X<- AB_PSSM(system.file("extdata","C7GRQ3.txt.pssm",package="PSSMCOOL"))
# }