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. 2020 Apr 25;69(6):1163–1179. doi: 10.1093/sysbio/syaa035

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© The Author(s) 2020. Published by Oxford University Press on behalf of the Society of Systematic Biologists.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure A4. — HIV demographic estimates. We estimate the effective population size history underlying an empirical HIV phylogeny with coalescent events. All tips of this tree are sampled in 1997 from the Democratic Republic of Congo. We plot the generalized skyline, the multiple change-point method and the FIA-optimized skyline estimates in (i), (ii), and (iv) in black against the classic skyline in grey. In (iii), we show the optimization over of the FIA (black) against its associated BIC (grey).

Inline graphic — HIV demographic estimates. We estimate the effective population size history underlying an empirical HIV phylogeny with coalescent events. All tips of this tree are sampled in 1997 from the Democratic Republic of Congo. We plot the generalized skyline, the multiple change-point method and the FIA-optimized skyline estimates in (i), (ii), and (iv) in black against the classic skyline in grey. In (iii), we show the optimization over of the FIA (black) against its associated BIC (grey).