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PoonLab / Kaphi

Kernel-embedded ABC-SMC for phylodynamic inference
GNU Affero General Public License v3.0
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MASTER: regularizing the size of the tree #121

Closed ArtPoon closed 6 years ago

ArtPoon commented 6 years ago

Right now the only stopping criterion is if the epidemic goes extinct. We need to use some additional criterion to constrain the size of the tree (number of sampled tips) so that they are more comparable to the target (observed) tree.

ArtPoon commented 6 years ago

Duplicate of #120 Previously we had both sampling time (t.sample) and simulation time (t.end) as separate parameters. Since we are initially validating with only one sampling time point, these should be the same parameter.