consunsus_sequence {PSSMCOOL} | R Documentation |
This feature vector is constructed from PSSM Matrix as:
\alpha(i)=argmax(P_{i,j})
where i varies between 1 and L and j between 1 and 20, L indicates protein length
and "arg" represents the argument of the maximum the ith base of the consensus sequence (CS) is then set to be the
\alpha(i)
th amino acid in the amino acid alphabet and a consensus sequence is constructed.
consunsus_sequence(pssm_name)
pssm_name |
is the name of PSSM Matrix file |
consunsus sequence wich extracted from PSSM
Y. Liang, S. Liu, S. J. C. Zhang, and m. m. i. medicine, "Prediction of protein structural classes for low-similarity sequences based on consensus sequence and segmented PSSM," vol. 2015, 2015.
X<-consunsus_sequence(system.file("extdata", "C7GQS7.txt.pssm", package="PSSMCOOL"))