Ecosyste.ms: Awesome

An open API service indexing awesome lists of open source software.

Awesome Lists | Featured Topics | Projects

https://github.com/johannesbuchner/autoemcee

Run MCMC automatically to convergence
https://github.com/johannesbuchner/autoemcee

bayesian-inference mcmc monte-carlo parallel-computing

Last synced: about 2 months ago
JSON representation

Run MCMC automatically to convergence

Host: GitHub
URL: https://github.com/johannesbuchner/autoemcee
Owner: JohannesBuchner
License: other
Created: 2020-04-21T16:03:16.000Z (almost 5 years ago)
Default Branch: master
Last Pushed: 2023-07-13T11:10:24.000Z (over 1 year ago)
Last Synced: 2024-08-09T05:46:16.933Z (5 months ago)
Topics: bayesian-inference, mcmc, monte-carlo, parallel-computing
Language: Python
Size: 6.9 MB
Stars: 8
Watchers: 4
Forks: 0
Open Issues: 1
Metadata Files:
- Readme: README.rst
- Changelog: HISTORY.rst
- Contributing: CONTRIBUTING.rst
- License: LICENSE

Awesome Lists containing this project

README

=========
autoemcee
=========

Runs MCMC automatically to convergence.

About
-----

Runs a family of Markov Chain Monte Carlo ensemble samplers (Affine-Invariant or Slice Sampler)
with gradually increasing number of samples until they converge.

Convergence is tested within each ensemble and across ensembles,
see `MCMC ensemble convergence test `_
for details.

Supports parallelisation with MPI. No modifications to your code is needed,
just run your script with mpiexec.

This package is built on top of emcee, zeus, anviz and mpi4py.

You can help by testing autoemcee and reporting issues. Code contributions are welcome.
See the `Contributing page `_.

.. image:: https://img.shields.io/pypi/v/autoemcee.svg
:target: https://pypi.python.org/pypi/autoemcee

.. image:: https://github.com/JohannesBuchner/autoemcee/actions/workflows/tests.yml/badge.svg
:target: https://github.com/JohannesBuchner/autoemcee/actions/workflows/tests.yml

.. image:: https://coveralls.io/repos/github/JohannesBuchner/autoemcee/badge.svg?branch=master
:target: https://coveralls.io/github/JohannesBuchner/autoemcee?branch=master

.. image:: https://img.shields.io/badge/docs-published-ok.svg
:target: https://johannesbuchner.github.io/autoemcee/
:alt: Documentation Status

Features
---------

* Pythonic. pip installable.
* Easy to program for: Sanity checks with meaningful errors
* both emcee and zeus are supported
* MPI support for parallel high-performance computing

Usage
^^^^^

Read the full documentation at:

https://johannesbuchner.github.io/autoemcee/

For parallelisation, use::

mpiexec -np 4 python3 yourscript.py

Licence
^^^^^^^

GPLv3 (see LICENCE file). If you require another license, please contact me.

Icon made by `Vecteezy `_ from `Flaticon `_ .

Other projects
^^^^^^^^^^^^^^