Summarize: Summarize and explain results
In James-Thorson/spatial_DFA: Spatial dynamic factor analysis

Summarize is intended to help document results, by providing explanation for outputs from obj$report()

1	Summarize(obj, species_names = NULL, rotation_method = "PCA")

`obj`	the TMB object after it has been previously optimized
`species_names`	an optional character-vector giving species names
`rotation_method`	what rotation method is used when visualizing results (default `rotation_method="PCA"`)

Tagged list of useful output

parhat: a list of fixed-effect estimates, with same format as starting values
L_pj: the loadings matrix, where e.g. L_pj[1,2] gives the association of species 1 with factor 2
Psi: the array of factors, where e.g. Psi[1,2,3] gives the value at site 1 of factor 2 in time 3
L_pj_rot: the loadings matrix after rotation, useful for ease of interpretation
Psi_rot: the value of factors, useful for ease of interpretation
range_jz: Decorrelation distance for factor j (1st column: spatial; 2nd column: spatio-temporal
theta_npt: 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
eta_npt: 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
logchat_i: Empirical Bayes prediction of log-expectation for observation i
nll_i: Empirical Bayes prediction of one-half of the deviance residual for observation i