Simulation of ecological (and other) dynamic systems


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Documentation for package ‘simecol’ version 0.6-6

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A C D E F G I L M N O P R S T U

-- --

simecol-package General Information about the ‘simecol’ Package

-- A --

addtoenv Add Functions from a Non-nested List of Named Functions to a Common Environment
alpha2rho Generate Plackett Bivariate Random Numbers
approxTime Linear Interpolation with Complete Matrices or Data Frames
approxTime1 Linear Interpolation with Complete Matrices or Data Frames
as.list,simObj-method Coerce simObj Objects to Lists and Vice-Versa
as.simObj Coerce simObj Objects to Lists and Vice-Versa
as.simObj,list-method Coerce simObj Objects to Lists and Vice-Versa

-- C --

CA Stochastic Cellular Automaton
chemostat Chemostat Model
coerce,list,simObj-method Coerce simObj Objects to Lists and Vice-Versa
coerce,simObj,list-method Coerce simObj Objects to Lists and Vice-Versa
conway The Classical Coway's Game of Life

-- D --

diffusion A Random Walk Particle Diffusion Model

-- E --

eightneighbors Count Number of Neighbours in a Rectangular Cellular Grid.
eightneighbours Count Number of Neighbours in a Rectangular Cellular Grid.
equations Accessor Functions for ‘simObj’ Objects
equations,simObj-method Accessor Functions for ‘simObj’ Objects
equations-methods Accessor Functions for ‘simObj’ Objects
equations<-,simObj-method Accessor Functions for ‘simObj’ Objects
equations<--methods Accessor Functions for ‘simObj’ Objects

-- F --

fitOdeModel Parameter Fitting for odeModel Objects
fixInit Fix ‘parms’, ‘init’ or '‘imes’ Slot of ‘simecol’ Objects
fixInit,simObj-method Fix ‘parms’, ‘init’ or '‘imes’ Slot of ‘simecol’ Objects
fixInit-methods Fix ‘parms’, ‘init’ or '‘imes’ Slot of ‘simecol’ Objects
fixParms Fix ‘parms’, ‘init’ or '‘imes’ Slot of ‘simecol’ Objects
fixParms,simObj-method Fix ‘parms’, ‘init’ or '‘imes’ Slot of ‘simecol’ Objects
fixParms-methods Fix ‘parms’, ‘init’ or '‘imes’ Slot of ‘simecol’ Objects
fixTimes Fix ‘parms’, ‘init’ or '‘imes’ Slot of ‘simecol’ Objects
fixTimes,simObj-method Fix ‘parms’, ‘init’ or '‘imes’ Slot of ‘simecol’ Objects
fixTimes-methods Fix ‘parms’, ‘init’ or '‘imes’ Slot of ‘simecol’ Objects
fromtoby Create Regular Sequence from 'from-to-by' Vector
functionOrcharacter-class Helpful Union Classes
functionOrNULL-class Helpful Union Classes

-- G --

gridModel Generating-functions (Constructors) to Create Objects of Classes ‘odeModel’, ‘rwalkModel’ and ‘gridModel’.
gridModel-class General Information about the ‘simecol’ Package

-- I --

indbasedModel Generating-functions (Constructors) to Create Objects of Classes ‘odeModel’, ‘rwalkModel’ and ‘gridModel’.
indbasedModel-class General Information about the ‘simecol’ Package
init Accessor Functions for ‘simObj’ Objects
init,simObj-method Accessor Functions for ‘simObj’ Objects
init-methods Accessor Functions for ‘simObj’ Objects
init<-,gridModel,ANY-method Accessor Functions for ‘simObj’ Objects
init<-,gridModel,matrix-method Accessor Functions for ‘simObj’ Objects
init<-,simObj,ANY-method Accessor Functions for ‘simObj’ Objects
init<--methods Accessor Functions for ‘simObj’ Objects
initfunc Accessor Functions for ‘simObj’ Objects
initfunc,simObj-method Accessor Functions for ‘simObj’ Objects
initfunc-methods Accessor Functions for ‘simObj’ Objects
initfunc<-,simObj-method Accessor Functions for ‘simObj’ Objects
initfunc<--methods Accessor Functions for ‘simObj’ Objects
initialize,simObj-method Methods for Function ‘initialize’ in Package ‘simecol’
initialize-methods Methods for Function ‘initialize’ in Package ‘simecol’
inputs Accessor Functions for ‘simObj’ Objects
inputs,simObj-method Accessor Functions for ‘simObj’ Objects
inputs-methods Accessor Functions for ‘simObj’ Objects
inputs<-,simObj-method Accessor Functions for ‘simObj’ Objects
inputs<--methods Accessor Functions for ‘simObj’ Objects
iteration Discrete Simulation
iteration,gridModel-method Discrete Simulation
iteration,numeric-method Discrete Simulation
iteration,odeModel-method Discrete Simulation
iteration,simObj-method Discrete Simulation
iteration-methods Discrete Simulation

-- L --

listOrdata.frame-class Helpful Union Classes
listOrNULL-class Helpful Union Classes
lv Lotka-Volterra Predator-Prey Model
lv3 Lotka-Volterra-Type Model with Resource, Prey and Predator

-- M --

main Accessor Functions for ‘simObj’ Objects
main,simObj-method Accessor Functions for ‘simObj’ Objects
main-methods Accessor Functions for ‘simObj’ Objects
main<-,simObj-method Accessor Functions for ‘simObj’ Objects
main<--methods Accessor Functions for ‘simObj’ Objects
mixNamedVec Mix Two Named Vectors, Resolving Name Conflicts

-- N --

neighbors Count Number of Neighbours in a Rectangular Cellular Grid.
neighbours Count Number of Neighbours in a Rectangular Cellular Grid.
numericOrlist-class Helpful Union Classes

-- O --

observer Accessor Functions for ‘simObj’ Objects
observer,simObj-method Accessor Functions for ‘simObj’ Objects
observer-methods Accessor Functions for ‘simObj’ Objects
observer<-,simObj-method Accessor Functions for ‘simObj’ Objects
observer<--methods Accessor Functions for ‘simObj’ Objects
odeModel Generating-functions (Constructors) to Create Objects of Classes ‘odeModel’, ‘rwalkModel’ and ‘gridModel’.
odeModel-class General Information about the ‘simecol’ Package
out Accessor Functions for ‘simObj’ Objects
out,gridModel-method Accessor Functions for ‘simObj’ Objects
out,odeModel-method Accessor Functions for ‘simObj’ Objects
out,simObj-method Accessor Functions for ‘simObj’ Objects
out-methods Accessor Functions for ‘simObj’ Objects
out<-,simObj-method Accessor Functions for ‘simObj’ Objects
out<--methods Accessor Functions for ‘simObj’ Objects

-- P --

p.constrain Transform Data Between Unconstrained and Box-constrained Scale
p.unconstrain Transform Data Between Unconstrained and Box-constrained Scale
parms Accessor Functions for ‘simObj’ Objects
parms,simObj-method Accessor Functions for ‘simObj’ Objects
parms-methods Accessor Functions for ‘simObj’ Objects
parms<-,simObj-method Accessor Functions for ‘simObj’ Objects
parms<--methods Accessor Functions for ‘simObj’ Objects
pcu Generate Plackett Bivariate Random Numbers
pcuseries Generate Plackett Bivariate Random Numbers
peaks Find Peaks Within xy-Data
plot,ANY,ANY-method Methods for Function plot in Package ‘simecol’
plot,gridModel,missing-method Methods for Function plot in Package ‘simecol’
plot,odeModel,missing-method Methods for Function plot in Package ‘simecol’
plot,rwalkModel,missing-method Methods for Function plot in Package ‘simecol’
plot,simObj,missing-method Methods for Function plot in Package ‘simecol’
plot-methods Methods for Function plot in Package ‘simecol’
print,ANY-method Methods for Function ‘print’ in Package ‘simecol’
print,simObj-method Methods for Function ‘print’ in Package ‘simecol’
print-methods Methods for Function ‘print’ in Package ‘simecol’

-- R --

rho2alpha Generate Plackett Bivariate Random Numbers
rwalkModel Generating-functions (Constructors) to Create Objects of Classes ‘odeModel’, ‘rwalkModel’ and ‘gridModel’.
rwalkModel-class General Information about the ‘simecol’ Package

-- S --

sEdit Simple editing
seedfill Color Fill Algorithm
show,simObj-method Methods for Function ‘print’ in Package ‘simecol’
sim Simulation of 'simObj' model objects
sim,gridModel-method Simulation of 'simObj' model objects
sim,odeModel-method Simulation of 'simObj' model objects
sim,simObj-method Simulation of 'simObj' model objects
sim-methods Simulation of 'simObj' model objects
simecol General Information about the ‘simecol’ Package
simObj General Information about the ‘simecol’ Package
simObj-class General Information about the ‘simecol’ Package
solver Accessor Functions for ‘simObj’ Objects
solver,simObj-method Accessor Functions for ‘simObj’ Objects
solver-methods Accessor Functions for ‘simObj’ Objects
solver<-,simObj-method Accessor Functions for ‘simObj’ Objects
solver<--methods Accessor Functions for ‘simObj’ Objects
ssqOdeModel Sum of Squares Between odeModel and Data

-- T --

times Accessor Functions for ‘simObj’ Objects
times,simObj-method Accessor Functions for ‘simObj’ Objects
times-methods Accessor Functions for ‘simObj’ Objects
times<-,simObj-method Accessor Functions for ‘simObj’ Objects
times<--methods Accessor Functions for ‘simObj’ Objects

-- U --

upca The Uniform Period Chaotic Amplitude Model