Package: multiStockassessment 0.4.0

multiStockassessment: Fitting Multiple State-Space Assessment Models

Fitting multiple SAM models.

Authors:Christoffer Moesgaard Albertsen [aut, cre]

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multiStockassessment.pdf |multiStockassessment.html✨
multiStockassessment/json (API)
NEWS

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

Peer review:

Bug tracker:https://github.com/calbertsen/multi_sam/issues

Uses libs:
  • c++– GNU Standard C++ Library v3

On CRAN:

fisheriesfisheries-stock-assessmentstock-assessmentstockassessment

2.70 score 5 stars 4 scripts 8 exports 7 dependencies

Last updated 1 months agofrom:d8692fe1c6 (on shared_obs). Checks:OK: 1 WARNING: 8. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 14 2024
R-4.5-win-x86_64WARNINGOct 15 2024
R-4.5-linux-x86_64WARNINGOct 15 2024
R-4.4-win-x86_64WARNINGNov 14 2024
R-4.4-mac-x86_64WARNINGNov 14 2024
R-4.4-mac-aarch64WARNINGNov 14 2024
R-4.3-win-x86_64WARNINGNov 14 2024
R-4.3-mac-x86_64WARNINGNov 14 2024
R-4.3-mac-aarch64WARNINGNov 14 2024

Exports:dataperiodplotgen2PCAholdoutmohn_CImohn_sim_CImultisam.fitread.gensuggestCorStructure

Dependencies:ellipselatticeMatrixRcppRcppEigenstockassessmentTMB

Readme and manuals

Help Manual

Help pageTopics
Add transparency to a coloraddTrans
Collect msam objectsc.msam
Catch plotcatchplot.msam
Catch Tablecatchtable.msam
Extract parameter estimates of msam objectcoef.msam
Correlation and partial correlation plot between survival processescorplot.msam
Deterministic reference pointsdeterministicReferencepoints.msam
F-at-age Tablefaytable.msam
Fbar plot for msam objectfbarplot.msam
Fbar Tablefbartable.msam
Fit plotfitplot.msam
F selectivity plotfselectivityplot.msam
Prepare allele matrix for PCA analysisgen2PCA
Calculate gradient of a functiongrad
Holdout forecast for validationholdout holdout.msam
Calculate jacobian of a functionjacobian
Jitter runsjit.msam
Life expectancy plotlifeexpectancyplot.msam
SSB Tablelifeexpectancytable.msam
Forecast of a multiStockassessmentmodelforecast.msam
Model tablemodeltable.msam
Model tablemodeltable.msamset
Fit multiple SAM models with correlationsmultisam.fit
N Tablentable.msam
Parameter plotparplot.msam
Parameter tablepartable.msam
Function to actually do the plottingplotit.msam plotit.msamforecast
Print result from multisam.fitprint.msam
Print msam coef objectprint.msamcoef
Read genepop data filesread.gen
Recruitment plotrecplot.msam
Recruitment Tablerectable.msam
Simulate from a msam objectsimulate.msam
Stock-recruitment plotsrplot.msam
SSB plotssbplot.msam
SSB Tablessbtable.msam
Suggest correlation structuresuggestCorStructure
Summary of msam objectsummary.msam
Table helpertableit tableit.msam
TSB plottsbplot.msam
TSB Tabletsbtable.msam
Life Years lost to fishing plotyearslostplot.msam
Yield per recruit calculationypr.msam