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hallucigenia-sparsa / seqtime

The seqtime R package provides functions to analyse sequencing data time series and to simulate community dynamics
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Hubbell model interpretation #20

Open fbarraquand opened 6 years ago

fbarraquand commented 6 years ago

In network_inference.Rmd, Hubbell's model seems interpreted as involving no interspecific interactions ("the model does not involve an interaction matrix"). But under the zero-sum assumption that makes all individuals compete for space equally, intra- and inter-specific competition seem essentially equal. This point is exploited in some multivariate time series models to test for neutrality, for instance in Mutshinda, C. M., & O’Hara, R. B. (2011). Integrating the niche and neutral perspectives on community structure and dynamics. Oecologia, 166(1), 241-251. Hence it seems logical that a matrix with a large number of interactions is inferred (irrespective of other identifiability issues that are certainly plausible).

hallucigenia-sparsa commented 6 years ago

Thanks for the reference. Yes, indeed, the tutorial text needs to be adjusted to avoid the impression that interactions are absent from Hubbell's model (done now).