Description Usage Arguments Value
View source: R/move.HSMM.mllk.R
This function, modified from Langrock et al. (2012), computes the negative log likelihood of the hidden Markov model.
| 1 2 |   move.HSMM.mllk(parvect, obs, PDFs, CDFs, skeleton,
    inv.transforms, nstates, m1, ini, useRcpp = FALSE)
 | 
| parvect | The vector of parameters to be estimated | 
| obs | A n x ndist matrix of data. If ndist=1, obs must be a n x 1 matrix. | 
| PDFs | A list of PDFs for the dwell time and ndist observation distributions. | 
| CDFs | A list of CDFs for the dwell time and ndist observation distributions. | 
| skeleton | A list with the original parameter structure used to reassemble parvect | 
| inv.transforms | A list of inverse transformations used to transform parvect back to the original scale | 
| nstates | Number of hidden states | 
| m1 | a vector of length nstates that specifies how many states will be used to approximate each state of the HSMM (see Langrock and Zuchinni 2011) | 
| ini | numeric value that specifies how the initial state distribution is calculated. 0 sets the initial distribution to the stationary distribution. If this matrix is not invertible, 1 sets the initial distribution for each state within each state agreggate to 1/m(state). | 
| useRcpp | Logical indicating whether or not to use Rcpp. | 
The negative log likelihood of the hidden markov model.
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