Package: CatDyn 1.1-1

CatDyn: Fishery Stock Assessment by Catch Dynamics Models

Based on fishery Catch Dynamics instead of fish Population Dynamics (hence CatDyn) and using high-frequency or medium-frequency catch in biomass or numbers, fishing nominal effort, and mean fish body weight by time step, from one or two fishing fleets, estimate stock abundance, natural mortality rate, and fishing operational parameters. It includes methods for data organization, plotting standard exploratory and analytical plots, predictions, for 100 types of models of increasing complexity, and 72 likelihood models for the data.

Authors:Ruben H. Roa-Ureta

CatDyn_1.1-1.tar.gz
CatDyn_1.1-1.zip(r-4.5)CatDyn_1.1-1.zip(r-4.4)CatDyn_1.1-1.zip(r-4.3)
CatDyn_1.1-1.tgz(r-4.4-any)CatDyn_1.1-1.tgz(r-4.3-any)
CatDyn_1.1-1.tar.gz(r-4.5-noble)CatDyn_1.1-1.tar.gz(r-4.4-noble)
CatDyn_1.1-1.tgz(r-4.4-emscripten)CatDyn_1.1-1.tgz(r-4.3-emscripten)
CatDyn.pdf |CatDyn.html✨
CatDyn/json (API)
NEWS

# Install 'CatDyn' in R:
install.packages('CatDyn', repos = c('https://ruben-hernan.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Datasets:
  • gayhake - Industrial and Artisanal Catch and Effort Data from the Chilean Hake Fishery
  • gayhakelm - Length and Month data of Chilean hake from Artisanal Fishery
  • gayhakelw - Length and Weight data of Chilean hake from Artisanal Fishery
  • lolgahi - Industrial Trawling Data from the Squid Fishery of the Falkland Islands
  • m.hoenig - Marine animals natural mortality and longevity database
  • twelver - Sport Fishing for Eel Juveniles in Taiwan

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

1.43 score 1 stars 27 scripts 206 downloads 19 exports 6 dependencies

Last updated 6 years agofrom:0c706a84f1. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 27 2024
R-4.5-winOKOct 27 2024
R-4.5-linuxOKOct 27 2024
R-4.4-winOKOct 27 2024
R-4.4-macOKOct 27 2024
R-4.3-winOKOct 27 2024
R-4.3-macOKOct 27 2024

Exports:as.CatDynDatacatdynCatDynBSDCatDynCorCatDynDatacatdynexpCatDynExpCatDynFitCatDynModCatDynParCatDynPredCatDynSumcor2covdeltamethodM.Hoenigmobw.kgplot.CatDynDataplot.CatDynExpplot.CatDynMod

Dependencies:BBnloptrnumDerivoptimxpracmaquadprog

Readme and manuals

Help Manual

Help pageTopics
Fisheries Stock Assessment by Generalized Depletion (Catch Dynamics) ModelsCatDyn-package
Data Object for the Estimation of Catch Dynamic Modelsas.CatDynData
Class Attribute of Numerically Fit CatDyn Model Objectscatdyn
Calculate Annual Biomass and its Standard ErrorCatDynBSD
Correlation Plot Among Parameter EstimatesCatDynCor
Class Attribute of CatDyn Data ObjectCatDynData
Exploratory Evaluation of Initial Values of CatDyn Modelscatdynexp
Class Attribute of Exploratory Analysis ObjectCatDynExp
Fit CatDyn Models by Maximum LikelihoodCatDynFit
Class Attribute of Model Output ObjectCatDynMod
Table of Parameter Estimates and Coefficients of VariationCatDynPar
Predictions from a Generalized Depletion (Catch Dynamics) ModelCatDynPred
Summary Table for Generalized Depletion (Catch Dynamics) Model ComparisonCatDynSum
Correlation Matrix to Covariance Matrix Conversioncor2cov
First-order Taylor Series Expansion of Functions of Random Variablesdeltamethod
Industrial and Artisanal Catch and Effort Data from the Chilean Hake Fisherygayhake
Length and Month data of Chilean hake from Artisanal Fisherygayhakelm
Length and Weight data of Chilean hake from Artisanal Fisherygayhakelw
Industrial Trawling Data from the Squid Fishery of the Falkland Islandslolgahi
Marine animals natural mortality and longevity databasem.hoenig
Estimate natural mortality rate from longevity dataM.Hoenig
Mean body weight per monthmobw.kg
Exploratory Analysis of Catch and Effort Fisheries Dataplot.CatDynData
Exploratory Modeling of Fisheries with Catch Dynamic (generalized depletion) Modelsplot.CatDynExp
Examination of Results from Fitting Catch Dynamic Modelsplot.CatDynMod
Sport Fishing for Eel Juveniles in Taiwantwelver