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I've recently been thinking about the implementation details for both `@Samplers` and `@Processors`. In particular, under the current framework, each type of node, for example: `RealVariable`, `Unroot…
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Hi, first of all, really nice package!
I'm running MCMC chains in Stan, since computing the gradient of my distribution is not trivial and Stan's autodiff does it for me.
I wanted then to use the …
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In your book page 76, Code 3.11 :
run_mcmc = tf.function(
tfp.experimental.mcmc.windowed_adaptive_nuts,
autograph=False, jit_compile=True)
mcmc_samples, sampler_stats = run_mcmc(
10…
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Hello.
I am trying to run some Temperature replica exchange simulations for small molecules. The relevant part of my script is as follows.
```
# Set up the temperature range for replicas
n_replica…
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Hello,
I have been using the minimize function in ReplicaExchangeSampler to minimize a set of replicas in different alchemical states like this:
_lsd_move = openmmtools.mcmc.LangevinSplittingDyn…
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Neither the `posterior_predictive` nor the `posterior_predictive_branch` samplers check for the existence of functional "r" random generation functions. This causes a problem in the case of user-defi…
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) as nested sampling typically converges more quickly than MCMC and can handle multi-modal poste…
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I thank reviewer 3 for raising this issue (rephrased by AHL):
The normalised curvature matrix [used to find the optimal value of alpha] is constructed numerically from chi2 using a forward Euler me…