substrate.host: substrate data for host-parasite movement

In byandell/ewing: Ewing's Quantitative Population Ethology

substrate data for host-parasite movement

Description

The substrate.species tables (substrate.host, etc.) describe movement rates on the substrate. The substrate.substrate object (substrate.substrate) describes connectivity of substrate units. Names of species and substrate(s) are established in organism.features and internalized via init.simulation.

Format

The substrate.species objects have the following columns:

substrate

class of substrate (fruit, twig or leaf)

side

side of substrate

init

weights for initialization of simulation

find

risk species finds this new position on substrate

move

risk species moves from this position on substrate

fruit

first substrate class (substrate fruit)

twig

second substrate class (twig connecting fruit to branch)

leaf

third substrate class (leaf on twig)

The row names of substrate.species objects coincide with the row and column names of substrate.substrate. Notice that for this simulation, there are four sides to each fruit (1,2,3,4) and two sides to each leaf (top,bottom), but only one side to a twig.

fr1

fruit side 1

fr2

fruit side 2

fr3

fruit side 3

fr4

fruit side 4

twig

twig

lftop

leaf top

lfbot

leaf bottom

Details

The substrate classes are defined implicitly in the substrate.species interaction tables, and could be different for different species on the same substrate. These substrate classes are associated with the possible substrate positions (7 in this simulation, 4 on fruit, 2 on leaf and 1 on twig).

Movement of individuals is rather primitive in this invocation, and is not fully implemented. The find and move are placeholders for future improvements. Basically the intent is that teh risk for moving from a position on the substrate is proportional to move, while the risk of moving to a new position is proportional to find. As set, fruit is more preferable than leaf, which is preferred to twig, for all species. [These columns are not in fact used for current simulations.] Connectivity of positions is determined by substrate.substrate, which contains 0s and 1s, with positions directly connected (1) or not (0).

References

www.stat.wisc.edu/~yandell/ewing

See Also

init.simulation,organism.features

Examples

data(substrate.host)
data(substrate.parasite)
data(substrate.substrate)

byandell/ewing documentation built on Jan. 3, 2024, 7:27 p.m.