A scaled Viterbi algorithm for allocating clones to one of five underlying states.

Description

A work horse of the fit.model function. It uses a scaled version of the Viterbi algorithm to allocate clones to one of five underlying states as fitted using a heterogeneous HMM.

Usage

1
Viterbi.five(y, BFGS.output, BFGS.trans.mat)

Arguments

y

the data to be allocated to states

BFGS.output

The output obtained from the find.param.five function

BFGS.trans.mat

A list of the heterogeneous transition matrices

Value

A vector of numbers indicating to which state clones are allocated to.

Author(s)

John Marioni

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