fitIMC: Estimation of interaction probabilities using the indirect...

Description Usage Arguments Details Value Author(s) References

View source: R/fitIMC.R

Description

Esimation of iteractions probability using the indirect matching centrality approach as described in Rohr (2014) and Rohr (2016).

Usage

1
fitIMC(data, d = 1, verbose = TRUE, control = list())

Arguments

data

an object of the class alienData.

d

dimensionnality.

verbose

a logical, should extra information be reported on progress?

control

list that can be used to control the behavior of the algorithm including the value for initial temperature and maximum runiing time(see GenSA::GenSA() for more details).

Details

fitIMC implements the indirect matching-centrality method as described in Rohr 2014 and Rohr 2016. Briefly, the method uses latent traits to fit interactions. The first step requires the definition of two sets of interacting species: set1 and set2 (respectively of size nset1 and nset2). The first category of latent trait are the matching traits. (to be developped) The second category include the centrality terms. (to be developped). Latents traits are buitl under certain topological constraints:

Value

An object of class alienFit.

Author(s)

Kevin Cazelles

References

Rohr, R. P. & Bascompte, J. Components of Phylogenetic Signal in Antagonistic and Mutualistic Networks. Am. Nat. 184, 556–564 (2014).

Rohr, R. P., Naisbit, R. E., Mazza, C. & Bersier, L.-F. Matching-centrality decomposition and the forecasting of new links in networks. Proc. R. Soc. B Biol. Sci. 283, 20152702 (2016).


TheoreticalEcosystemEcology/alien documentation built on Feb. 21, 2020, 7:12 p.m.