hmm_Single_Average {protHMM} | R Documentation |
hmm_Single_Average
Description
This feature groups together rows that are related to the same amino acid. This is done using a vector
SA(k)
, in which k
spans 1:400
and SA(k) = avg_{i = 1, 2... L}H[i, j] \times \delta(P(i), A(z))
,
in which H
is the HMM matrix, P
in the protein sequence, A
is an ordered set of amino acids,
the variables j, z = 1:20
, the variable k = j + 20 \times (z-1)
when creating the vector,
and \delta()
represents Kronecker's delta.
Usage
hmm_Single_Average(hmm)
Arguments
hmm |
The name of a profile hidden markov model file. |
Value
A vector of length 400.
References
Nanni, L., Lumini, A., & Brahnam, S. (2014). An Empirical Study of Different Approaches for Protein Classification. The Scientific World Journal, 2014, 1–17.
Examples
h<- hmm_Single_Average(system.file("extdata", "1DLHA2-7", package="protHMM"))
[Package protHMM version 0.1.1 Index]