Package: rema
Type: Package
Title: A generalized framework to fit the random effects (RE) model, a
        state-space random walk model developed at the Alaska Fisheries
        Science Center (AFSC) for apportionment and biomass estimation
        of groundfish and crab stocks.
Version: 1.2.0
Date: 2022-12-15
Authors@R: c(
    person("Jane", "Sullivan", email = "jane.sullivan@noaa.gov", role = c("aut", "cre")),
    person("Laurinne", "Balstad", email = "lbalstad@ucdavis.edu", role = c("aut", "ctb")),
    person("Cole", "Monnahan",  email = "cole.monnahan@noaa.gov", role = c("ctb")),
    person("Pete", "Hulson",  email = "pete.hulson@noaa.gov", role = c("ctb"))
    )
Description: This package provides a generalized framework to fit the
        random effects (RE) model, a state-space random walk model
        developed at the Alaska Fisheries Science Center (AFSC) for
        smoothing survey biomass estimates and apportioning catch among
        management areas. REMA is a multivariate extension of the
        original single-survey, single-strata RE model that allows the
        use of multiple strata within a survey and an additional survey
        (e.g. CPUE or relative population numbers) to inform the
        biomass trend (Hulson et al. 2021). If multi-survey mode is
        turned off, REMA runs the same as the univariate (RE) and
        multivariate (i.e. multiple area or depth strata; REM) versions
        of the model. REMA was developed in Template Model Builder
        (TMB; Kristensen et al. 2016).
Depends: R (>= 3.6.0)
Imports: TMB (>= 1.7.20), tidyr (>= 1.1.2), dplyr (>= 1.0.2), ggplot2
        (>= 3.3.2), zoo (>= 1.7), sessioninfo (>= 1.1.1), abind (>=
        1.4-5), rmarkdown (>= 2.11), knitr (>= 1.37), magrittr (>=
        2.0.0)
LinkingTo: TMB (>= 1.8.1), RcppEigen (>= 0.3.3.9.1)
URL: https://github.com/JaneSullivan-NOAA/rema,
        https://afsc-assessments.github.io/rema/
BugReports: https://github.com/JaneSullivan-NOAA/rema/issues
License: GPL-3
VignetteBuilder: knitr
RoxygenNote: 7.3.1
Encoding: UTF-8
Suggests: testthat (>= 3.0.0), cowplot (>= 1.1.1), tmbstan, bayesplot,
        rstan
Remotes: kaskr/tmbstan/tmbstan
Config/testthat/edition: 3
Config/pak/sysreqs: cmake make libicu-dev libuv1-dev
Repository: https://jimianelli.r-universe.dev
Date/Publication: 2025-01-11 00:47:12 UTC
RemoteUrl: https://github.com/afsc-assessments/rema
RemoteRef: HEAD
RemoteSha: 9d801300099041f7f54c1f94dd6de42ab3d85eb1
NeedsCompilation: yes
Packaged: 2026-07-15 06:04:25 UTC; root
Author: Jane Sullivan [aut, cre],
  Laurinne Balstad [aut, ctb],
  Cole Monnahan [ctb],
  Pete Hulson [ctb]
Maintainer: Jane Sullivan <jane.sullivan@noaa.gov>