SalmonSurvCUI

Example data set for use in MARSS vignettes for the DLM chapter in the <code><a href="/link/MARSS-package?package=MARSS&version=3.8" rd-options="" data-mini-rdoc="MARSS::MARSS-package">MARSS-package</a></code> User Guide. This is a 42-year time-series of the logit of juvenile salmon survival along with an index of April coastal upwelling.  See the source for details.

datasets

The MARSS package provides maximum-likelihood parameter estimation for constrained and unconstrained linear multivariate autoregressive state-space (MARSS) models fit to multivariate time-series data.  Fitting is primarily via an Expectation-Maximization (EM) algorithm, although fitting via the BFGS algorithm (using the optim function) is also provided.  MARSS models are a class of dynamic linear model (DLM) and vector autoregressive model (VAR) model.  Functions are provided for parametric and innovations bootstrapping, Kalman filtering and smoothing, bootstrap model selection criteria (AICb), confidences intervals via the Hessian approximation and via bootstrapping and calculation of auxiliary residuals for detecting outliers and shocks.  The user guide shows examples of using MARSS for parameter estimation for a variety of applications, model selection, dynamic factor analysis, outlier and shock detection, and addition of covariates.  Type RShowDoc("UserGuide", package="MARSS") at the R command line to open the MARSS user guide.  Online workshops (lectures and computer labs) at http://faculty.washington.edu/eeholmes/workshops.shtml  See the NEWS file for update information.

Elizabeth Holmes  NOAA Federal

MARSS

Multivariate Autoregressive State-Space Modeling

SalmonSurvCUI function

The data are provided as a matrix with time running down the rows.  Column 1 is year, column 2 is the logit of the proportion of juveniles that survive to adulthood, column 3 is an index of the April coastal upwelling index.

format

Scheuerell, Mark D., and John G. Williams. "Forecasting climate-induced changes in the survival of Snake River spring/summer Chinook salmon (Oncorhynchus tshawytscha)." Fisheries Oceanography 14.6 (2005): 448-457.

SalmonSurvCUI: Salmon Survial Indices

Description

Usage

Arguments

format

source

Examples