Summarize is intended to help document results, by providing explanation for outputs from
the TMB object after it has been previously optimized
an optional character-vector giving species names
what rotation method is used when visualizing results (default
Tagged list of useful output
a list of fixed-effect estimates, with same format as starting values
the loadings matrix, where e.g.
L_pj[1,2] gives the association of species 1 with factor 2
the array of factors, where e.g.
Psi[1,2,3] gives the value at site 1 of factor 2 in time 3
the loadings matrix after rotation, useful for ease of interpretation
the value of factors, useful for ease of interpretation
Decorrelation distance for factor j (1st column: spatial; 2nd column: spatio-temporal
Empirical Bayes prediction of log-density, where e.g.,
theta_npt[1,2,3] gives the log-density for site 1 and species 2 in time 3
Empirical Bayes prediction of log-detectability, where e.g.,
eta_npt[1,2,3] gives the log-detectability for site 1 and species 2 in time 3
Empirical Bayes prediction of log-expectation for observation i
Empirical Bayes prediction of one-half of the deviance residual for observation i
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