.arrangement-class      The '.arrangement' class
.fileEdit               Open a file for editing
.fileExtensions         File extensions map
.fillInputRows          An internal function for coercing a data.frame
                        to inputs()
.fillOutputRows         An internal function for coercing a data.frame
                        to inputs()
.first                  Event priority
.makeSpadesPlot         Make a '.spadesPlot' class object
.makeViewports          Make viewports
.moduleDeps-class       The '.moduleDeps' class
.simDeps-class          The '.simDeps' class
.simList-class          The 'simList' class
.spadesEnv              The SpaDES environment
.spadesGrob-class       The '.spadesGrob' class
.spadesPlot-class       The '.spadesPlot' class
.spadesPlotObjects-class
                        The '.spadesPlotObjects' class
.spadesPlottables-class
                        The '.spadesPlottables' class
.updateSpadesPlot       Merge two SpaDES Plot objects
POM                     Use Pattern Oriented Modeling to fit unknown
                        parameters
Plot                    Plot: Fast, optimally arranged, multipanel
                        plotting function with SpaDES
SpaDES-package          Categorized overview of the 'SpaDES' package
addin_newModule         Rstudio addin to create a new module
adj.raw                 Fast 'adjacent' function, and Just In Time
                        compiled version
agentLocation           'SELES' - Agent Location at initiation
append_attr             Add a module to a 'moduleList'
cache                   Cache method for simList class objects
changeObjEnv            Copy or move objects from one environment to
                        another
checkModule             Check for the existence of a remote module
checkObject             Check for existence of object(s) referenced by
                        a 'objects' slot of a 'simList' object
checkParams             Check use and existence of params passed to
                        simulation.
checkPath               Check filepath.
checksums               Calculate checksums for a module's data files
cir                     Identify pixels in a circle or ring (donut)
                        around an object.
classFilter             Filter objects by class
clearPlot               Clear plotting device
clearStubArtifacts      Clear erroneous archivist artifacts
clickValues             Mouse interactions with Plots
copy                    Copy a simList object
createsOutput           Define an output object of a module
defineModule            Define a new module.
defineParameter         Define a parameter used in a module
depsEdgeList            Build edge list for module dependency graph
depsGraph               Build a module dependency graph
dev                     Specify where to plot
directionFromEachPoint
                        Calculate distances and directions between many
                        points and many grid cells
distanceFromEachPoint   Calculate distances and directions between many
                        points and many grid cells
divergentColors         Divergent colour palette
doEvent.checkpoint      Simulation checkpoints.
downloadData            Download module data
downloadModule          Download a module from a SpaDES module GitHub
                        repository
dwrpnorm2               Vectorized wrapped normal density function
dyears                  SpaDES time units
envir                   Simulation environment
equalExtent             Assess whether a list of extents are all equal
eventDiagram            Simulation event diagram
events                  Simulation event lists
expectsInput            Define an input object that the module expects.
experiment              Run an experiment using 'spades'
fileExt                 Extract the file extension of a file
fileName                Extract filename (without extension) of a file
findObjects             Find objects if passed as character strings
gaussMap                Produce a 'raster' of a random Gaussian
                        process.
getColors               Get colours for plotting Raster* objects.
getFileName             Get the name of a 'source'-ed file
getModuleVersion        Find the latest module version from a SpaDES
                        module repository
globals                 Get and set simulation globals.
gpar                    Importing some grid functions
heading                 Heading between spatial points.
inRange                 Test whether a number lies within range '[a,b]'
inSeconds               Convert time units
initialize,simList-method
                        Generate a 'simList' object
initiateAgents          'SELES' - Initiate agents
inputs                  Inputs and outputs
layerNames              Extract the layer names of Spatial Objects
loadPackages            Load packages.
ls.simList              List simulation objects
ls.str.simList          List simulation objects and their structure
makeLines               Make 'SpatialLines' object from two
                        'SpatialPoints' objects
maxTimeunit             Determine the largest timestep unit in a
                        simulation
mergeRaster             Merge split raster tiles into a single raster
                        layer.
minTimeunit             Determine the smallest timeunit in a simulation
moduleCoverage          Calculate module coverage of unit tests
moduleDiagram           Simulation module dependency diagram
moduleGraph             Build a module dependency graph
moduleMetadata          Parse and extract module metadata
modules                 Simulation modules and dependencies
move                    Move
newModule               Create new module from template.
newModuleCode           Create new module code file
newModuleDocumentation
                        Create new module documentation
newModuleTests          Create template testing structures for new
                        modules
newPlot                 Open a new plotting window
newProgressBar          Progress bar
normPath                Normalize filepath
numAgents               SELES - Number of Agents to initiate
numLayers               Find the number of layers in a Spatial Object
objectDiagram           Simulation object dependency diagram
objs                    Extract or replace an object from the
                        simulation environment
openModules             Open all modules nested within a base directory
packages                Get simulation package dependencies
paddedFloatToChar       Convert numeric to character with padding
params                  Get and set simulation parameters.
patchSize               Patch size
paths                   Specify paths for modules, inputs, and outputs
probInit                'SELES' - Probability of Initiation
progressInterval        Get and set simulation progress bar details
randomPolygons          randomPolygons
rasterToMemory          Read raster to memory
rasterizeReduced        Convert reduced representation to full raster
rings                   Identifies all cells within a ring around the
                        focal cells
rndstr                  Generate random strings
saveFiles               Save objects using '.saveObjects' in 'params'
                        slot of 'simInit'
scheduleEvent           Schedule a simulation event
setColors<-             Set colours for plotting Raster* objects.
shine                   Display a simple, interactive shiny app of the
                        simList
show,simList-method     Show an Object
simInit                 Initialize a new simulation
spades                  Run a spatial discrete event simulation
spadesClasses           Classes defined in SpaDES
spadesMaps              Dummy maps included with 'SpaDES'
spatialObjects-class    The 'spatialObjects' class
specificNumPerPatch     Initiate a specific number of agents in a map
                        of patches
splitRaster             Split a RasterLayer into multiple tiles
spokes                  Identify outward radiating spokes from initial
                        points
spread                  Simulate a spread process on a landscape.
times                   Time usage in 'SpaDES'
transitions             'SELES' - Transitioning to next time step
updateList              Update elements of a named list with elements
                        of a second named list
versionWarning          Compare module version against SpaDES package
                        version and warn if incompatible
wrap                    Wrap coordinates or pixels in a torus-like
                        fashion
zipModule               Create a zip archive of a module subdirectory
