multiSA (version 0.1.0)

Dtag-class: Dtag S4 object

Description

S4 class that organizes the various data inputs for the MSA model. MSAdata simply inherits the slots from 6 component classes: Dmodel, Dstock, Dfishery, Dsurvey DCKMR, and Dtag, where the D- prefix denotes an object for data inputs (or model configuration).

Slots inherited from Dtag

tag_ymarrs

Array. Number of tags that move between regions. Informs movement matrices of stocks between time steps.

tag_ymars

Array. Number of tags distributed among regions. Informs stock distribution (within time step).

tag_yy

Boolean matrix that aggregates years for the tag data. Only used for the tag movement array tag_ymarrs.

tag_aa

Boolean matrix that aggregates ages for the tag data.

tag_like

Character. Likelihood for the tagging data, either the vector of proportions by region of origin for tag_ymarrs, or by region of stock distribution for tag_ymars. See type argument of like_comp() for options

tagN_ymars

Array. Sample size of the tag movement vectors if using the multinomial or Dirichlet-multinomial likelihoods.

tagN_ymas

Array. Sample size of the tag distribution vectors if using the multinomial or Dirichlet-multinomial likelihoods.

tagtheta_s

Array. Tag dispersion parameter (by stock) if using the Dirichlet-multinomial likelihoods. Default set to 1.

tagstdev_s

Array. Tag standard deviation (by stock) if using the lognormal likelihood. Default set to 0.1.

Details

For convenience, most arrays and matrices have the associated dimensions in the variable name. For example, Cobs_ymfr represents observed catch with the dimension following the underscore, following this template:

y	Year
m	Season
a	Age
r	Region
f	Fishery
i	Index
s	Stock

See Also

MSAdata-class check_data() Dmodel-class Dstock-class Dfishery-class Dsurvey-class DCKMR-class Dtag-class