started Anole demographic model not complete yet

[Vcaudill]

This the beginning of the IMex model in table 2 of the Bourgeois et al., 2019

model is not complete

[petrelharp]

You've done a bunch of good work here, @Vcaudill - want to get this finished off?

[gregorgorjanc]

@Vcaudill I briefly looked into the publication at https://academic.oup.com/gbe/article/11/7/2009/5499074. You have implemented the IMex model in Table 2, which lists parameters for 9 models (IM2M2Pex, IMex, ...).

The authors say:

• Strict-isolation models (SI) consistently displayed the lowest likelihood and highest AIC, clearly supporting a role for gene flow in homogenizing green anoles genomes.
• For the comparison between EF and WF, models including heterogeneous population sizes performed better than models with heterogeneous gene flow. Among scenarios with gene flow, SC with one and two periods of gene flow (SC and PSC) often received the highest support.
• Parameters estimated from the best models are shown in table 2. There was no substantial gain in likelihood when adding expansion to scenario of two SCs with background selection (PSC2N), and models with heterogeneous migration displayed lower likelihood.

Which models did you plan to implement?