A marssMLE object.

Number of digits for printing.

Other arguments for print.

What to print. Default is "fit". If you input what as a vector, print returns a list. See examples.

• "model" The model parameters with names for the estimated parameters. The output is customized by the form of the model that was fit. This info is in attr(x$model, "form") .

• "par" A list of only the estimated values in each matrix. Each model matrix has it's own list element. Standard function: coef(x)

• "start" or "inits" The values that the optimization algorithm was started at. Note, x$start shows this in form="marss" while print shows it in whatever form is in attr(x$model, "form") .

• "paramvector" A vector of all the estimated values in each matrix. Standard function: coef(x, type="vector"). See coef.

• "par.se","par.bias","par.lowCIs","par.upCIs" A vector the estimated parameter standard errors, parameter bias, lower and upper confidence intervals. Standard function: MARSSparamCIs(x) See MARSSparamCIs.

• "xtT" or "states" The estimated states conditioned on all the data. x$states

• "data" The data. This is in x$model$data

• "logLik" The log-likelihood. Standard function: x$logLik. See MARSSkf for a discussion of the computation of the log-likelihood for MARSS models.

• "ytT" The expected value of the data conditioned on all the data. Returns the data if present and the expected value if missing. This is in x$ytT (ytT is analogous to xtT).

• "states.se" The state standard errors. x$states.se

• "states.cis" Approximate confidence intervals for the states. See MARSSparamCIs.

• "model.residuals" The one-step ahead model residuals or innovations. y(t)-E[y(t)|y(1:t-1)], aka actual data at time t minus the expected value of the data conditioned on the data from t=1 to t-1. Standard function: residuals(x, type="tt1") See MARSSresiduals for a discussion of residuals in the context of MARSS models.

• "state.residuals" The smoothed state residuals. xtT(t)-E(x(t)|xtT(t-1)), aka the expected value of the states at time t conditioned on all the data minus the expected value of the states at time t conditioned on xtT(t-1). Standard function: residuals(x, type="tT") See MARSSresiduals.

• parameter name Returns the parameter matrix for that parameter with fixed values at their fixed values and the estimated values at their estimated values. Standard function: coef(x, type="matrix")$elem

• "kfs" The Kalman filter and smoother output. See MARSSkf for a description of the output. The full kf output is not normally attached to the output from a MARSS() call. This will run the filter/smoother if needed and return the list invisibly. So assign the output as foo=print(x,what="kfs")

• "Ey" The expectations involving y conditioned on all the data. See MARSShatyt for a discussion of these expectations. This output is not normally attached to the output from a MARSS() call–except ytT which is the predicted value of any missing y. The list is returned invisibly so assign the output as foo=print(x,what="Ey").

By default, print uses the model form specified in the call to MARSS(). This information is in attr(marssMLE$model, "form") , however you can specify a different form. form="marss" should always work since this is the model form in which the model objects are stored (in marssMLE$marss).

If TRUE, do not print just return the object. If print call is assigned, nothing will be printed. See examples. If what="fit", there is always output printed.