MetaLandSim (version 0.2)

simulate_graph: Simulate species occupancy in one dynamic landscape

Description

Simulates the species' occupation on a landscape sequence, resorting to the spom function.

Usage

simulate_graph(rl, rlist, simulate.start, method, parm, nsew, a_min, param_df, 
		kern, conn, colnz, ext, beta1, b, c1, c2, z, R)

Arguments

rl

Object of class 'landscape' or 'metapopulation'.

rlist

List delivered by span.graph.

simulate.start

TRUE (rl is of class 'landscape') or FALSE (rl is of class 'metapopulation')

method

One of the following: click - individually select the patches with occurrence of the species by clicking on the map. Use only for individual landscape simulations. However, this option should not be used with iterate.graph.

parm

Parameter to specify the species occurrence - either percentage of occupied patches or number of occupied patches, depending on the method chosen. To be internally passed to species.graph.

nsew

'N', 'S', 'E', 'W' or none - point of entry of the species in the landscape. By default set to "none". To be internally passed to species.graph.

a_min

Minimum patch area of the patches to be occupied (in hectares). To be internally passed to species.graph.

param_df

Parameter data frame delivered by parameter.estimate, including:

• alpha - Parameter relating extinction with distance.
• y - Parameter y in the colonization probability.
• e -

kern

'op1' or 'op2'. Dispersal kernel. See details in the spom function. To be internally passed to spom.

conn

'op1' or 'op2'. Connectivity function. See details in the spom function. To be internally passed to spom.

colnz

'op1', 'op2' or 'op3'. Colonization function. See details in the spom function. To be internally passed to spom.

ext

'op1', 'op2' or 'op3'. Extinction function. See details in the spom function. To be internally passed to spom.

beta1

Parameter afecting long distance dispersal probability (if the Kern='op2'). To be internally passed to spom.

b

Parameter scaling emigration with patch area (if conn='op1' or 'op2'). To be internally passed to spom.

c1

Parameter scaling immigration with the focal patch area (if conn='op2'). To be internally passed to spom.

c2

Parameter c in the option 3 of the colonization probability (if colnz='op3'). To be internally passed to spom.

z

Parameter giving the strength of the Allee effect (if colnz='op3'). To be internally passed to spom.

R

Parameter giving the strength of the Rescue effect (if ext='op3'). To be internally passed to spom.

Value

• Returns a list of occupied landscapes, representing the same occupied landscape at different time steps.

See Also

spom, span.graph, rland.graph, iterate.graph

Examples

data(rland)
data(landscape_change)
data(param1)

sim1 <- simulate_graph(rl=rland, 
			rlist=landscape_change, 
			simulate.start=TRUE, 
			method='percentage', 
			parm=50, 
			nsew='none', 
			a_min=0, 
			param_df=param1, 
			kern='op1', 
			conn='op1', 
			colnz='op1', 
			ext='op1', 
			beta1=NULL, 
			b=1, 
			c1=NULL, 
			c2=NULL, 
			z=NULL, 
			R=NULL
			)