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MARSS (version 3.6)

Multivariate Autoregressive State-Space Modeling

Description

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.

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Version

Install

install.packages('MARSS')

Monthly Downloads

1,182

Version

3.6

License

GPL-2

Maintainer

Elizabeth Holmes NOAA Federal

Last Published

November 26th, 2013

Functions in MARSS (3.6)

isleRoyal

Isle Royale Wolf and Moose Data
coef.marssMLE

Coefficient function for MARSS MLE objects
MARSSmcinit

Monte Carlo Initialization
stdInnov

Standardized Innovations
MARSSkf

Kalman Filtering and Smoothing for Time-varying MARSS models
MARSSinnovationsboot

Bootstrapped Data using Stoffer and Wall's Algorithm
MARSShatyt

Compute Expected Value of Y,YY, and YX
MARSSsimulate

Simulate Data from a MARSS Model
marssMLE

Maximum Likelihood MARSS Estimation Object
MARSSkem

Maximum Likelihood Estimation for Multivariate Autoregressive State-Space Models
print.marssMLE

Printing functions for MARSS MLE objects
MARSSapplynames

Names for marssMLE Object Components
CSEGtmufigure

Plot Forecast Uncertainty
harborSeal

Harbor Seal Population Count Data (Log counts)
MARSS

MARSS Model Specification and Estimation
MARSS.dfa

Multivariate Dynamic Factor Analysis
is.marssMODEL

Test Model Objects
MARSSvectorizeparam

Vectorize or Replace the par List
allowed

MARSS Function Defaults and Allowed Methods
marssMLE-class

Class "marssMLE"
MARSSoptim

Parameter estimation for MARSS models using optim
MARSSaic

AIC for MARSS Models
checkMARSSInputs

Check inputs to MARSS call
predict.marssMLE

Compute the Prediction Intervals, Expected Values, and Standard Errors for States (X) and Observation (Y) from MARSS fits
residuals.marssMLE

MARSS Standardized Residuals
MARSSkemcheck

Model Checking for MLE objects Passed to MARSSkem
print.marssMODEL

Printing marssMODEL Objects
utility.functions

Matrix Utilities
MARSSinfo

Information for MARSS Error Messages and Warnings
graywhales

Population Data Sets
MARSSparamCIs

Standard Errors, Confidence Intervals and Bias for MARSS Parameters
loggerhead

Loggerhead Turtle Tracking Data
MARSSboot

Bootstrap MARSS Parameter Estimates
marss.conversion

Convert Model Objects between Forms
CSEGriskfigure

Plot Extinction Risk Metrics
SalmonSurvCUI

Salmon Survial Indices
checkModelList

Check model List Passed into MARSS Call
MARSS-package

Multivariate Autoregressive State-Space Model Estimation
plankton

Plankton Data Sets
marssMODEL

Class "marssMODEL"
MARSSinits

Initial Values for MLE
MARSShessian

MARSS Parameter Variance-Covariance Matrix from the Hessian Matrix
MARSS.marxss

Multivariate AR-1 State-space Model with Inputs