CmdStanPy
CmdStanPy is a lightweight interface to Stan for Python users which provides the necessary objects and functions to compile a Stan program and run Stan's samplers.
Goals
-
Clean interface to Stan services so that CmdStanPy can keep up with Stan releases.
-
Provides complete control - all sampler arguments have corresponding named argument for CmdStanPy sampler function.
-
Easy to install,
- minimal Python library dependencies: numpy, pandas
- Python code doesn't interface directly with c++, only calls compiled executables
-
Modular - CmdStanPy produces a sample from the posterior, downstream modules do the analysis.
Docs
See https://cmdstanpy.readthedocs.io/en/latest/index.html
Source Repository
CmdStan's source-code repository is hosted here on GitHub.
Licensing
The CmdStanPy, CmdStan, and the core Stan C++ code are licensed under new BSD.
Example
::
import os
from cmdstanpy import CmdStanModel, cmdstan_path
# specify Stan file, create, compile CmdStanModel object
bernoulli_path = os.path.join(cmdstan_path(), 'examples', 'bernoulli', 'bernoulli.stan')
bernoulli_model = CmdStanModel(stan_file=bernoulli_path)
bernoulli_model.compile()
# specify data, fit the model
bernoulli_data = { "N" : 10, "y" : [0,1,0,0,0,0,0,0,0,1] }
bernoulli_fit = bernoulli_model.sample(chains=5, cores=3, data=bernoulli_data)
# summarize the results (wraps CmdStan `bin/stansummary`):
bernoulli_fit.summary()
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