Research map / Probabilistic and scientific modeling / Variational and generative sampling
Probabilistic Path Hamiltonian Monte Carlo
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Measured effects reported in the paper
| What was changed | Where | Measured | Effect |
|---|---|---|---|
| add surrogate smoothing (delta ~ 2*epsilon) to the potential near topology boundaries (ablation) | PPHMC on DS4 phylogenetic posterior · DS4 | largest usable step size at acceptance 0.65: step size nearly 10 times greater than exact PPHMC | Helped |
| add surrogate smoothing to the potential (ablation) | PPHMC on DS4 long trajectories · DS4 | acceptance probability and path length (NNI moves) | Helped |
| sample with PPHMC (surrogate-free posterior sampling on orthant complex) | PPHMC on simulated phylogenetic data · Simulated data N=50 | correctness of posterior sample | No clear effect |
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