FLCore: Core package of FLR, fisheries modelling in R.

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FLCore contains the 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/, including a development mailing list.

Author
FLR Team and various contributors. Initial design by Laurence T. Kell & Philippe Grosjean.
Date of publication
2013-04-25 16:02:31
Maintainer
FLR Team <flr-team@flr-project.org>
License
GPL-2
Version
2.5.0

View on R-Forge

Man pages

AIC
Akaike information criterion (AIC) method
apply
Method apply
Arith
Arithmetic methods for FLQuant objects
as.data.frame
Method as.data.frame
asOld
Old S3 coercion methods
BIC
Bayesian information criterion (BIC) method
bkey
Generate key for bubbles plot
bubbles
Bubbles plot
catchNames
Method catchNames
ccplot
Catch-curves plot
coerce
Method coerce
computeCatch
Methods to compute total catch, landings, discards and stock...
createFLAccesors
Create accesor methods for a given class
cv
Coefficient of Variation of FLR objects with multiple...
data
FLCore datasets
dimnames
Modify dimnames of an FLQuant
dims
List with information on object dimensions
expand
Trim FLR objects using named dimensions
Extract
Extract or Replace Parts of an FLR Object
fbar
Calculates mean harvest rate or fishing mortality
FLArray-class
Class FLArray
FLBiol-class
Class FLBiol
FLBiols-class
Class FLBiols
flc2flq
Coerce FLCohort into FLQuant.
FLCatch-accessors
Accesor and replacement methods for the FLCatch class
FLCatch-class
Class FLCatch
FLCatches-class
Class FLCatches
FLCohort-class
Class FLCohort
FLCohorts-class
Class FLCohorts
FLComp-class
Class FLComp
FLCore-accesors
Accesor and replacement methods for complex S4 classes
FLCore-internal
FLCore-internal
FLCore-package
Core package of FLR, fisheries modelling in R.
FLFleet-class
Class FLFleet
FLFleets-class
Class FLFleets
FLIndex-class
Class FLIndex
FLIndices-class
Class FLIndices
FLlst-class
Class FLlst
FLMetier-class
Class FLMetier
FLMetiers-class
Class FLMetiers
FLModel-class
Class FLModel for statistical models
FLPar-class
Class FLPar
FLQuant-class
FLQuant class for numerical data
FLQuantPoint-accesors
Method lowq
FLQuantPoint-class
Class FLQuantPoint
FLQuants-class
Class FLQuants
FLQuantSums
Methods to compute sums, means and vars of FLQuant objects
FLQuantTotals
Method quantTotals
FLSR-class
Class FLSR
FLStock-class
Class FLStock
FLStocks-class
Class FLStocks
FLtest
FLtest functions for running simple units tests
fmle
Method fmle
harvest
Harvest calculations for FLBiol
IOfunctions
Input/Output of FLR objects
is.FL
Methods to determine the class of a given object
iter
Select or modify iterations of an FLR object
iters
Method iters
jacknife
Jacknife resampling
lapply
Method lapply
lattice
Lattice plots
leslie
Method for calculating Leslie matrix dynamics of an FLBiol...
limits
Methods upper and lower
lowess
Method lowess
mcf
Method mcf
mean
Method mean
mean.lifespan
Method for calculating mean lifespan, given the natural...
median
Method median
mergeFL
Merging FLStock objects
metier
Method metier
model.frame
Method model.frame
names
Method names
nls
Method nls
plot
Method plot
predict
Method predict
print
Method print
propagate
Extend an FLQuant along the iter dimension
pv
Population variability
qapply
Method qapply
quant
Method quant
quantile
Method quantile
r
Intrinsic rate of increase from an FLBiol object
range
Method range
revenue
Method revenue
rgamma
Method rgamma
rlnorm
Method rlnorm
rnorm
Method rnorm
rpois
Method rpois
sd
Standard deviation of an FLModel object
setPlusGroup
Method setPlusGroup
show
Method show
sop
Calculates the sum of products correction
splom
Method splom
spr0
Method spr0
sr
Stock-recruitment model function
SRModelName
Convenience function to identify an SR model by its formula
SRModels
Stock-Recruitment models
ssb
Method ssb
ssbpurec
Method ssbpurec
ssn
Method ssn
summary
Method summary
survprob
Calculating survival probabilties given mortality in the...
sweep
Sweep out FLQuant Summaries
transform
Transform elements of a complex FLR object
trim
Trim FLR objects using named dimensions
units
units attribute for FLQuant objects
update
Method update
var
Variance of an FLPar
window
Extract time (year) windows of an FLR object

Files in this package

FLCore/DESCRIPTION
FLCore/NAMESPACE
FLCore/NEWS
FLCore/R
FLCore/R/FLAccesors.R
FLCore/R/FLArray.R
FLCore/R/FLBiol.R
FLCore/R/FLCatch.R
FLCore/R/FLCohort.R
FLCore/R/FLComp.R
FLCore/R/FLFleet.R
FLCore/R/FLGrowth.R
FLCore/R/FLIndex.R
FLCore/R/FLMetier.R
FLCore/R/FLModel.R
FLCore/R/FLModelDeriv.R
FLCore/R/FLPar.R
FLCore/R/FLQuant.R
FLCore/R/FLQuantJK.R
FLCore/R/FLQuantPoint.R
FLCore/R/FLQuants.R
FLCore/R/FLSR.R
FLCore/R/FLStock.R
FLCore/R/FLlst-class.R
FLCore/R/FLlst-methods.R
FLCore/R/FLtest.R
FLCore/R/PlotDiagnostics.R
FLCore/R/SRmodels.R
FLCore/R/classesArr.R
FLCore/R/classesComp.R
FLCore/R/coerce.R
FLCore/R/genericMethods.R
FLCore/R/io.ADMB.R
FLCore/R/io.Adapt.R
FLCore/R/io.FLIndices.R
FLCore/R/io.FLStock.R
FLCore/R/io.MFCL.R
FLCore/R/io.VPA2Box.R
FLCore/R/io.VPAsuite.R
FLCore/R/operators.R
FLCore/R/zzz.R
FLCore/data
FLCore/data/bt4.RData
FLCore/data/datalist
FLCore/data/nsher.RData
FLCore/data/ple4.RData
FLCore/data/ple4.biol.RData
FLCore/data/ple4.index.RData
FLCore/data/ple4.indices.RData
FLCore/data/ple4sex.RData
FLCore/demo
FLCore/demo/00Index
FLCore/demo/FLFleet.R
FLCore/demo/FLSR.R
FLCore/inst
FLCore/inst/CITATION
FLCore/inst/include
FLCore/inst/include/FLCoreClasses.hpp
FLCore/man
FLCore/man/AIC.Rd
FLCore/man/Arith.Rd
FLCore/man/BIC.Rd
FLCore/man/Extract.Rd
FLCore/man/FLArray-class.Rd
FLCore/man/FLBiol-class.Rd
FLCore/man/FLBiols-class.Rd
FLCore/man/FLCatch-accessors.Rd
FLCore/man/FLCatch-class.Rd
FLCore/man/FLCatches-class.Rd
FLCore/man/FLCohort-class.Rd
FLCore/man/FLCohorts-class.Rd
FLCore/man/FLComp-class.Rd
FLCore/man/FLCore-accesors.Rd
FLCore/man/FLCore-internal.Rd
FLCore/man/FLCore-package.Rd
FLCore/man/FLFleet-class.Rd
FLCore/man/FLFleets-class.Rd
FLCore/man/FLIndex-class.Rd
FLCore/man/FLIndices-class.Rd
FLCore/man/FLMetier-class.Rd
FLCore/man/FLMetiers-class.Rd
FLCore/man/FLModel-class.Rd
FLCore/man/FLPar-class.Rd
FLCore/man/FLQuant-class.Rd
FLCore/man/FLQuantPoint-accesors.Rd
FLCore/man/FLQuantPoint-class.Rd
FLCore/man/FLQuantSums.Rd
FLCore/man/FLQuantTotals.Rd
FLCore/man/FLQuants-class.Rd
FLCore/man/FLSR-class.Rd
FLCore/man/FLStock-class.Rd
FLCore/man/FLStocks-class.Rd
FLCore/man/FLlst-class.Rd
FLCore/man/FLtest.Rd
FLCore/man/IOfunctions.Rd
FLCore/man/SRModelName.Rd
FLCore/man/SRModels.Rd
FLCore/man/apply.Rd
FLCore/man/as.data.frame.Rd
FLCore/man/asOld.Rd
FLCore/man/bkey.Rd
FLCore/man/bubbles.Rd
FLCore/man/catchNames.Rd
FLCore/man/ccplot.Rd
FLCore/man/coerce.Rd
FLCore/man/computeCatch.Rd
FLCore/man/createFLAccesors.Rd
FLCore/man/cv.Rd
FLCore/man/data.Rd
FLCore/man/dimnames.Rd
FLCore/man/dims.Rd
FLCore/man/expand.Rd
FLCore/man/fbar.Rd
FLCore/man/flc2flq.Rd
FLCore/man/fmle.Rd
FLCore/man/harvest.Rd
FLCore/man/is.FL.Rd
FLCore/man/iter.Rd
FLCore/man/iters.Rd
FLCore/man/jacknife.Rd
FLCore/man/lapply.Rd
FLCore/man/lattice.Rd
FLCore/man/leslie.Rd
FLCore/man/limits.Rd
FLCore/man/lowess.Rd
FLCore/man/mcf.Rd
FLCore/man/mean.Rd
FLCore/man/mean.lifespan.Rd
FLCore/man/median.Rd
FLCore/man/mergeFL.Rd
FLCore/man/metier.Rd
FLCore/man/model.frame.Rd
FLCore/man/names.Rd
FLCore/man/nls.Rd
FLCore/man/plot.Rd
FLCore/man/predict.Rd
FLCore/man/print.Rd
FLCore/man/propagate.Rd
FLCore/man/pv.Rd
FLCore/man/qapply.Rd
FLCore/man/quant.Rd
FLCore/man/quantile.Rd
FLCore/man/r.Rd
FLCore/man/range.Rd
FLCore/man/revenue.Rd
FLCore/man/rgamma.Rd
FLCore/man/rlnorm.Rd
FLCore/man/rnorm.Rd
FLCore/man/rpois.Rd
FLCore/man/sd.Rd
FLCore/man/setPlusGroup.Rd
FLCore/man/show.Rd
FLCore/man/sop.Rd
FLCore/man/splom.Rd
FLCore/man/spr0.Rd
FLCore/man/sr.Rd
FLCore/man/ssb.Rd
FLCore/man/ssbpurec.Rd
FLCore/man/ssn.Rd
FLCore/man/summary.Rd
FLCore/man/survprob.Rd
FLCore/man/sweep.Rd
FLCore/man/transform.Rd
FLCore/man/trim.Rd
FLCore/man/units.Rd
FLCore/man/update.Rd
FLCore/man/var.Rd
FLCore/man/window.Rd
FLCore/src
FLCore/src/FLCoreClasses.cpp
FLCore/src/Makevars
FLCore/src/Makevars.win
FLCore/tests
FLCore/tests/FLCohort.R
FLCore/tests/FLComp.R
FLCore/tests/FLFleet.R
FLCore/tests/FLModelProfile.R
FLCore/tests/FLPar.R
FLCore/tests/FLQuant.R
FLCore/tests/FLQuants.R
FLCore/tests/FLStock.R
FLCore/tests/FLlst.R