https://github.com/aesara-devs/aehmc

An HMC/NUTS implementation in Aesara

Science Score: 26.0%

This score indicates how likely this project is to be science-related based on various indicators:

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CITATION.cff file
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codemeta.json file
Found codemeta.json file
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.zenodo.json file
Found .zenodo.json file
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DOI references
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Academic publication links
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Committers with academic emails
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JOSS paper metadata
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Scientific vocabulary similarity
Low similarity (12.1%) to scientific vocabulary

Keywords

hmc mcmc nuts symbolic-computation

Keywords from Contributors

optimizing-compiler probabilistic-programming

Last synced: 9 months ago · JSON representation

Repository

An HMC/NUTS implementation in Aesara

Basic Info

Host: GitHub
Owner: aesara-devs
License: mit
Language: Python
Default Branch: main
Homepage:
Size: 1.83 MB

Statistics

Stars: 31
Watchers: 5
Forks: 6
Open Issues: 7
Releases: 11

Topics

hmc mcmc nuts symbolic-computation

Created about 5 years ago · Last pushed almost 3 years ago

Metadata Files

Readme Funding License Security

# Aehmc [![Pypi][pypi-badge]][pypi] [![Gitter][gitter-badge]][gitter] [![Discord][discord-badge]][discord] [![Twitter][twitter-badge]][twitter] AeHMC provides implementations for the HMC and NUTS samplers in [Aesara](https://github.com/aesara-devs/aesara). [Features](#features) • [Get Started](#get-started) • [Install](#install) • [Get help](#get-help) • [Contribute](#contribute)

Get started

``` python import aesara from aesara import tensor as at from aesara.tensor.random.utils import RandomStream

from aeppl import joint_logprob

from aehmc import nuts

A simple normal distribution

Y_rv = at.random.normal(0, 1)

def logprobfn(y): return jointlogprob(realized={Y_rv: y})[0]

Build the transition kernel

srng = RandomStream(seed=0) kernel = nuts.newkernel(srng, logprobfn)

Compile a function that updates the chain

yvv = Yrv.clone() initialstate = nuts.newstate(yvv, logprobfn)

stepsize = at.astensor(1e-2) inversemassmatrix=at.astensor(1.0) chaininfo, updates = kernel(initialstate, stepsize, inversemassmatrix)

nextstepfn = aesara.function([yvv], chaininfo.state.position, updates=updates)

print(nextstepfn(0))

1.1034719409361107

```

Install

The latest release of AeHMC can be installed from PyPI using pip:

bash pip install aehmc

Or via conda-forge:

bash conda install -c conda-forge aehmc

The current development branch of AeHMC can be installed from GitHub using pip:

bash pip install git+https://github.com/aesara-devs/aehmc

Get help

Report bugs by opening an issue. If you have a question regarding the usage of AeHMC, start a discussion. For real-time feedback or more general chat about AeHMC use our Discord server or Gitter room.

Contribute

AeHMC welcomes contributions. A good place to start contributing is by looking at the issues.

If you want to implement a new feature, open a discussion or come chat with us on Discord or Gitter.

Owner

Name: Aesara
Login: aesara-devs
Kind: organization
Email: aesara.devs@gmail.com

Website: https://github.com/aesara-devs
Twitter: AesaraDevs
Repositories: 7
Profile: https://github.com/aesara-devs

GitHub Events

Total

Last Year

Committers

Last synced: about 3 years ago

All Time

Total Commits: 132
Total Committers: 5
Avg Commits per committer: 26.4
Development Distribution Score (DDS): 0.303

Past Year

Commits: 47
Committers: 3
Avg Commits per committer: 15.667
Development Distribution Score (DDS): 0.383

Top Committers

Name	Email	Commits
Rémi Louf	r**f@g**m	92
Brandon T. Willard	b**d@u**m	36
Rémi Louf	r**i@t**m	2
Brandon T. Willard	9**d@u**m	1
Thomas Wiecki	t**i@g**m	1

Committer Domains (Top 20 + Academic)

thetypicalset.com: 1

Issues and Pull Requests

Last synced: 10 months ago

All Time

Total issues: 41
Total pull requests: 56
Average time to close issues: about 2 months
Average time to close pull requests: 12 days
Total issue authors: 4
Total pull request authors: 5
Average comments per issue: 1.12
Average comments per pull request: 3.14
Merged pull requests: 49
Bot issues: 0
Bot pull requests: 0

Past Year

Issues: 0
Pull requests: 0
Average time to close issues: N/A
Average time to close pull requests: N/A
Issue authors: 0
Pull request authors: 0
Average comments per issue: 0
Average comments per pull request: 0
Merged pull requests: 0
Bot issues: 0
Bot pull requests: 0

View more stats

Top Authors

Issue Authors

rlouf (21)
zoj613 (9)
brandonwillard (9)
twiecki (2)

Pull Request Authors

rlouf (38)
brandonwillard (12)
zoj613 (4)
gitter-badger (1)
twiecki (1)

Top Labels

Issue Labels

enhancement (17) important (15) help wanted (11) good first issue (7) bug (7) testing (5) documentation (5) refactoring (4) CI (2) jax (1) numba (1) question (1)

Pull Request Labels

important (19) enhancement (19) bug (11) refactoring (8) documentation (6) testing (4) CI (3) numba (1)

Packages

Total packages: 3
Total downloads:
- pypi 71 last-month

Total dependent packages: 2
(may contain duplicates)
Total dependent repositories: 2
(may contain duplicates)
Total versions: 21
Total maintainers: 3

pypi.org: aehmc

HMC samplers in Aesara

Homepage: http://github.com/aesara-devs/aehmc
Documentation: https://aehmc.readthedocs.io/
License: MIT License
Latest release: 0.0.11
published over 3 years ago

Versions: 11
Dependent Packages: 1
Dependent Repositories: 1
Downloads: 54 Last month

Rankings

Dependent packages count: 4.6%

Stargazers count: 11.3%

Forks count: 13.3%

Average: 14.0%

Downloads: 19.0%

Dependent repos count: 21.8%

Maintainers (3)

brandonwillard dgerlanc rlouf

Last synced: 10 months ago

pypi.org: aehmc-nightly

HMC samplers in Aesara

Homepage: http://github.com/aesara-devs/aehmc
Documentation: https://aehmc-nightly.readthedocs.io/
License: MIT License
Latest release: 0.0.10
published over 3 years ago

Versions: 1
Dependent Packages: 0
Dependent Repositories: 0
Downloads: 17 Last month

Rankings

Dependent packages count: 6.6%

Stargazers count: 11.4%

Forks count: 14.5%

Average: 23.4%

Dependent repos count: 30.6%

Downloads: 53.9%

Maintainers (3)

brandonwillard dgerlanc rlouf

Last synced: 10 months ago

conda-forge.org: aehmc

Homepage: https://github.com/aesara-devs/aehmc
License: MIT
Latest release: 0.0.10
published over 3 years ago

Versions: 9
Dependent Packages: 1
Dependent Repositories: 1

Rankings

Dependent repos count: 24.4%

Dependent packages count: 29.0%

Average: 37.7%

Stargazers count: 45.1%

Forks count: 52.3%

Last synced: 10 months ago

Dependencies

.github/workflows/pypi.yml actions

actions/checkout v3 composite
actions/download-artifact v2 composite
actions/setup-python v4 composite
actions/upload-artifact v2 composite
pypa/gh-action-pypi-publish release/v1 composite

.github/workflows/test.yml actions

actions/checkout v3 composite
actions/download-artifact v2 composite
actions/setup-python v4 composite
actions/upload-artifact v2 composite
codecov/codecov-action v1 composite
conda-incubator/setup-miniconda v2 composite
dorny/paths-filter v2 composite
pre-commit/action v2.0.0 composite

examples/requirements.txt pypi

aeppl *
matplotlib *
pymc3 *

requirements.txt pypi

arviz *
autoflake *
black ==20.8b1
coveralls *
diff-cover *
pre-commit *
pydocstyle >=3.0.0
pylint >=2.3.1
pytest >=5.0.0
pytest-cov >=2.6.1
pytest-html >=1.20.0
versioneer *

environment.yml pypi

pyproject.toml pypi

aeppl >= 0.1.4
aesara >= 2.8.11
numpy >= 1.18.1
scipy >= 1.4.0

https://github.com/aesara-devs/aehmc

Science Score: 26.0%

Keywords

Keywords from Contributors

Repository

Basic Info

Statistics

Topics

Metadata Files

README.md

Get started

A simple normal distribution

Build the transition kernel

Compile a function that updates the chain

1.1034719409361107

Install

Get help

Contribute

Owner

GitHub Events

Total

Last Year

Committers

All Time

Past Year

Top Committers

Committer Domains (Top 20 + Academic)

Issues and Pull Requests

All Time

Past Year

Top Authors

Issue Authors

Pull Request Authors

Top Labels

Issue Labels

Pull Request Labels

Packages

pypi.org: aehmc

Rankings

Maintainers (3)

pypi.org: aehmc-nightly

Rankings

Maintainers (3)

conda-forge.org: aehmc

Rankings

Dependencies