RunLBSPRAssessFun: A wrapper function to execute the ADMB optimization routine

In DanOvando/Old-LBSPR: What the package does (short line)

Description

This function runs the ADMB assessment code and returns of list of parameter estimates, model fits, and some other information.

Usage

RunLBSPRAssess(AssessPars, LenFreq, LenMids, ADMBDir, ExName = "lbspr",
  showOutput = FALSE, MaxCount = 5, ADMBRead = NULL)

Arguments

AssessPars	An object of class list that contains the parameters required for the LB-SPR assessment. Use LoadAssessPars function to create this object.
LenFreq	A numeric vector that contains the counts of the length observed data corresponding to the LenMids length bins Must be the same length as LenMids.
LenMids	A numeric vector that contains the mid-points of the length classes corresponding to the LenFreq data. Must be the same length as LenFreq.
ADMBDir	An object of class character that specifies the location of the ADMB executable file.
ExName	An object of class character that specifies the name of the ADMB executalbe file. Default is lbspr and should not include extension.
showOutput	An object of class logical that determines if the output of the ADMB will be displayed in the R Console. Apparently only works on Windows OS.
MaxCount	An object of class numeric that specifies the maximum number of times the ADMB code is executed with different starting parameters before the determining that the model failed to converge. Default is 5.
ADMBRead	ADD DETAILS HERE

Value

A list that contains:

• ModelFailed A logical that determines if the model failed to converge. If #' TRUE then other objects in list are likely to be NULL or missing completely.

• Estimates A matrix containing the parameter estimates.

• Pred A numeric vector containing the predicted relative size composition.

• Obs A numeric vector containing the observed size composition.

• Bins A numeric vector containing the length class corresonding to observed and predicted length data.

• ObjFunVal A numeric value specifying the value of the objective function of the ADMB model.

• Grad The final gradient value.

• Cormat A matrix containing the estimated variance-covariance matrix.

Author(s)

Adrian Hordyk

DanOvando/Old-LBSPR documentation built on May 6, 2019, 1:22 p.m.