Showing 25 of total 25 results (show query)
flr
FLCore:Core Package of FLR, Fisheries Modelling in R
Core classes and methods for FLR, a framework for fisheries modelling and management strategy simulation in R. Developed by a team of fisheries scientists in various countries. More information can be found at <http://flr-project.org/>.
Maintained by Iago Mosqueira. Last updated 8 days ago.
fisheriesflrfisheries-modelling
45.8 match 16 stars 8.78 score 956 scripts 23 dependentsflr
ggplotFL:Using ggplot2 in FLR
Using ggplot2 for FLR. Provides (1) overloaded ggplot methods for various FLR classes, (2) ggplot-based versions of standard plots in the FLCore package, and (3) new geoms for using FLR objects.
Maintained by Iago Mosqueira. Last updated 2 months ago.
visualizationggplot2fisheriesflr
40.9 match 4 stars 7.60 score 458 scripts 12 dependentsflr
mse:Tools for Running Management Strategy Evaluations using FLR
A set of functions and methods to enable the development and running of Management Strategy Evaluation (MSE) analyses, using the FLR packages and classes and the a4a methods and algorithms.
Maintained by Iago Mosqueira. Last updated 20 days ago.
39.3 match 4 stars 7.04 score 137 scripts 3 dependentsflr
FLBRP:Reference Points for Fisheries Management
Calculates a range of biological reference points based upon yield per recruit and stock recruit based equilibrium calculations. These include F based reference points like F0.1, FMSY and biomass based reference points like BMSY.
Maintained by Iago Mosqueira. Last updated 3 months ago.
reference pointsfisheriesflrcpp
34.8 match 2 stars 6.58 score 350 scripts 4 dependentsflr
FLasher:Projection and Forecasting of Fish Populations, Stocks and Fleets
Projection of future population and fishery dynamics is carried out for a given set of management targets. A system of equations is solved, using Automatic Differentation (AD), for the levels of effort by fishery (fleet) that will result in the required abundances, catches or fishing mortalities.
Maintained by Iago Mosqueira. Last updated 8 days ago.
33.0 match 2 stars 6.86 score 254 scripts 6 dependentsflr
ss3om:Tools for Conditioning Fisheries Operating Models Using Stock Synthesis 3
Tools for loading Stock Synthesis (SS3) models into FLR. Used in conditioning of Operating Models based on SS3 by considering structural uncertainty in input parameters and assumptions. A grid of SS3 runs can be created and results loaded on objects of various FLR classes.
Maintained by Iago Mosqueira. Last updated 1 months ago.
38.0 match 3.94 score 44 scriptsflr
FLBEIA:Bio-Economic Impact Assessment of Management Strategies using FLR
A simulation toolbox that describes a fishery system under a Management Strategy Estrategy approach. The objective of the model is to facilitate the Bio-Economic evaluation of Management strategies. It is multistock, multifleet and seasonal. The simulation is divided in 2 main blocks, the Operating Model (OM) and the Management Procedure (MP). In turn, each of these two blocks is divided in 3 components: the biological, the fleets and the covariables on the one hand, and the observation, the assessment and the advice on the other.
Maintained by FLBEIA Team. Last updated 4 days ago.
24.8 match 11 stars 5.97 score 156 scriptsflr
FLa4a:A Simple and Robust Statistical Catch at Age Model
A simple and robust statistical Catch at Age model that is specifically designed for stocks with intermediate levels of data quantity and quality.
Maintained by Ernesto Jardim. Last updated 4 days ago.
22.0 match 12 stars 6.66 score 177 scripts 2 dependentsflr
FLSRTMB:FLSR in TMB
Estimates FLR spawner recruitment relationships in TMB
Maintained by Henning Winker. Last updated 13 days ago.
stock-recruitfisheriesflrtmbadcpp
33.6 match 3.67 score 26 scripts 1 dependentsflr
FLSAM:An Implementation of the State-Space Assessment Model for FLR
This package provides an FLR wrapper to the SAM state-space assessment model.
Maintained by N.T. Hintzen. Last updated 3 months ago.
27.2 match 4 stars 4.51 score 406 scriptsflr
FLAssess:Generic Classes and Methods for Stock Assessment Models
A generic set of classes for stock assessment models are provided here. Individual assessment packages should extend the basic classes.
Maintained by Iago Mosqueira. Last updated 3 months ago.
25.7 match 4.77 score 324 scripts 3 dependents
consmavr
FLR:Fuzzy Logic Rule Classifier
FLR algorithm for classification
Maintained by Constantinos Mavridis. Last updated 13 years ago.
61.9 match 1.78 score 3 scriptsflr
FLXSA:eXtended Survivor Analysis for FLR
Calculates stock numbers and fishing mortality at age from commercial catch data and one or more indices of abundance suing the method in Darby and Flatman (1994) and Shepherd (1999).
Maintained by Iago Mosqueira. Last updated 3 months ago.
25.1 match 2 stars 4.36 score 95 scripts 1 dependentsflr
FLash:Forecasting and Projection of Fish Stocks
Projecting the future dynamics of fish stocks is an essential part of fisheries science and management advice. The FLash package carries out forecasts of fish stocks (FLStock objects) according to a defined table of targets and limits (fwdControl) and applying and specified stock-recruitment relationship.
Maintained by Laurence T. Kell. Last updated 3 months ago.
22.0 match 4.92 score 186 scripts 1 dependentsflr
FLFishery:Classes and Methods for Simpler Fleet/Fishery Modelling
A set of classes and methods for modelling of fleet dynamics. Fisheries are groups of vessels sharing an effort time series, with static or changing spatio-temporal patterns in selectivity.
Maintained by Iago Mosqueira. Last updated 3 months ago.
33.0 match 3.02 score 8 scripts 7 dependentsflr
FLfse:Fisheries Sampling Evaluation In FLR
Fisheries Sampling Evaluation in FLR. A package to interface betwen the SAM stock assessments and FLR, and aid the inclusion of SAM into Management Strategy Evaluation (MSE), including the set up of operating models mimicking SAM.
Maintained by Simon Fischer. Last updated 3 years ago.
29.7 match 2 stars 2.71 score 51 scriptsflr
FLRef:Reference point computation for advice rules
Blah
Maintained by Henning Winker. Last updated 6 days ago.
22.0 match 3 stars 3.45 score 11 scriptsflr
FLFleet:Classes and Methods for Fleets and Metiers
This package contains classes and methods for modelling of fishing fleets and their activity on multiple fish stocks.
Maintained by Iago Mosqueira. Last updated 2 years ago.
22.0 match 1 stars 3.11 score 86 scripts 1 dependentsflr
bbm:FLR Implementation of a Two-Stage Stock Assessment Model
The two-stage biomass-based model for the Bay of Biscay anchovy (Ibaibarriaga et al., 2008).
Maintained by Leire Ibaibarriaga. Last updated 3 years ago.
24.9 match 2.70 score 5 scriptsflr
AAP:Aarts and Poos Stock Assessment Model that Estimates Bycatch
FLR version of Aarts and Poos stock assessment model.
Maintained by Iago Mosqueira. Last updated 1 years ago.
22.6 match 2.70 score 5 scriptsflr
mseviz:Plots and Visualization Tools for Management Strategy Evaluation Results
A set of plots and visualization tools to explore and present the results of Management Strategy Evaluation (MSE) analyses.
Maintained by Iago Mosqueira. Last updated 8 months ago.
22.0 match 2.70 score 10 scriptsflr
a4adiags:Additional Diagnostics for FLa4a stock Assessment Models
A series of extra diagnostics for the FLa4a model, including prediction skill through restrospective prediction of model inputs and runs tests. Contains ggplot-based plot funtions of diagnostics outputs.
Maintained by Iago Mosqueira. Last updated 11 days ago.
22.0 match 2.70 score 7 scripts
sprfmo
FLjjm:Running the JJM Stock Assessment Model Inside the MSE FLR System
Runs the JJM stock assessment model for Chilean Jack Mackerel inside the MSE system of FLR's mse package.
Maintained by Iago Mosqueira. Last updated 8 days ago.
5.0 match 3.74 score 3 scripts
ices-tools-prod
TAF:Transparent Assessment Framework for Reproducible Research
General framework to organize data, methods, and results used in reproducible scientific analyses. A TAF analysis consists of four scripts (data.R, model.R, output.R, report.R) that are run sequentially. Each script starts by reading files from a previous step and ends with writing out files for the next step. Convenience functions are provided to version control the required data and software, run analyses, clean residues from previous runs, manage files, manipulate tables, and produce figures. With a focus on stability and reproducible analyses, the TAF package comes with no dependencies. TAF forms a base layer for the 'icesTAF' package and other scientific applications.
Maintained by Arni Magnusson. Last updated 4 months ago.
1.8 match 3 stars 6.85 score 282 scripts 2 dependentsices-tools-prod
msy:Estimation of Equilibrium Reference Points for Fsisheries
Methods to estimate equilibrium reference points for fisheries data. Currently data must be converted into FLStock objects of the FLR (Fisheries Library in R) style, defined in the R package FLCore.
Maintained by Colin Millar. Last updated 2 years ago.
0.5 match 13 stars 3.91 score 42 scripts