Detailed Package Description - Stock Assessment Toolbox

Detailed Package Description

cathydichmont 11/06/2020 Uncategorized 0

General information

Full name: %FullName%
Model description: %Description%
Package web link: %Web.link%
Citation(s): %Citation%
Developer name(s): %Developers%
Organisation(s): %Organization%
Model type: %Type%
Level of expertise required: %Expertise%
Peer reviewed: %Peer.reviewed%
Programming language: %Programming.language%
GUI: %GUI%
R Package: %R.package%
Training available: %Training%
Package status: %Package status%
Further comments: %Comment%

Key model architecture

Single or multi-species: %Single.multiple.spp%
Multi-species technical interactions: %Multi.species.technical.interactions%
Temporal resolution: %Temporal.resolution%
Sex structured: %Sex.structure%
Growth platoons: %Growth.platoons%
Tagging data: %Tagging%
Area structure: %Area.structure%
Spatial resolution: %Spatial.resolution%
Stock structure: %Stock.structure%
Selectivity model: %Logistic%; Double normal -%Double.normal%; Spline-%Spline.1%; Parameter for each age/nonparametric -%Parameter.for.each.age.nonparametric%; Other -%Other.21%
Seasonality: %Seasonal%
Estimation approach: Maximum likelihood -%Maximum.likelihood%; Bayesian – %Bayesian%; Random effects/State-space -%Random.effects.state.space%

Main input data

Catch

Catch: %Catch%
Retained: %Retained%
Discarded: %Discarded%

Composition data

Length composition: %Length.composition%
Age composition: %Age.composition%
Weight composition: %Weight.composition%
Conditional age-at-length: %Conditional.age.at.length%
Mean weight-at-age: %Mean.weight.at.age%
Mean length-at-age: %Mean.length.at.age%
Sex: %Sex%
Morph composition: %Morph.composition%
Ageing error: %Aging.error%
Custom composition bin size: %Custom.composition.bin.size%
Stock origin: %Stock.origin%
Other composition data: %Other.3%

Indices

Index of abundance: %Index.of.abundance%
Index of effort: %Index.of.effort%
Index of fishing mortality: %Fishing.mortality%
Absolute index of abundance: %Absolute.estimate.of.abundance%
Environment index: %Environmental.index..of.a.parameter.random.effect.%
Other index: %Other.4%

Tagging

Mark recapture data: %Mark.recapture..to.estimate.movement.and.or.F.or.B.%
Growth increment: %Growth.increment%
Close kin: %Close.kin%
Gene tagging: %Gene.tagging..Maybe.some.special.requirements.%
Other tagging: %Other.5%

Projections and reference points calculations

Reference points

MSY: %MSY%
FMSY: %FMSY%
SPRx: %SPRx%
Spawning biomass per recruit: %Spawning.biomass.per.recruit%
Biomass target: %Biomass.target%
Dynamic B0: %Dynamic.B0%

Projections

Random deviates: %Random.deviates%
Normal approximation: %Normal.approximation%
Parameter uncertainty: %Parameter.uncertainty%
Fishery impact plots: %Fishery.impact.plots%
Other: %Other.29%

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