https://github.com/dmetivie/abcmethods.jl
A Julia package implementing some Bayesian ABC methods
https://github.com/dmetivie/abcmethods.jl
abc abc-smc bayesian bayesian-neural-networks julia
Last synced: 2 months ago
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A Julia package implementing some Bayesian ABC methods
- Host: GitHub
- URL: https://github.com/dmetivie/abcmethods.jl
- Owner: dmetivie
- License: other
- Created: 2024-07-19T15:05:34.000Z (10 months ago)
- Default Branch: master
- Last Pushed: 2025-02-12T15:00:03.000Z (3 months ago)
- Last Synced: 2025-02-12T15:51:28.800Z (3 months ago)
- Topics: abc, abc-smc, bayesian, bayesian-neural-networks, julia
- Language: Julia
- Homepage:
- Size: 1.05 MB
- Stars: 0
- Watchers: 1
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE
- Authors: AUTHORS
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README
# ABCMethods
A Julia package featuring various ABC methods.
## Methods
This package implements
- Classic ABC: See the historical paper [Pritchard et al. - 1999](https://academic.oup.com/mbe/article/16/12/1791/2925409)
- ABC-SMC: A sequential Monte Carlo version of the classic ABC method [Moral et al. - 2012](https://link.springer.com/article/10.1007/s11222-011-9271-y). Note that this is the only method not using a reference table for training.
- ABC-CNN: ABC method as described by [Åkesson et al. - 2021](https://ieeexplore.ieee.org/abstract/document/9525290).
- ABC-Conformal: ABC method completely free of summary statistics and threshold selection as described in [Baragatti et al. - 2024](https://arxiv.org/abs/2406.04874). It use Approximate Bayesian Computation (ABC) with deep learning and conformal prediction.
## Example of usage
The documentation is not (yet) available however, detailed Quarto notebook on several examples using all implemented ABC methods are available.
- [MA(2) example](https://mistea.pages.mia.inra.fr/codes_articles/abcdconformal/julia/MA2/ABC_Conformal_MA2.html) (2 parameters) -> Well known toy Bayesian example.
- [Discrete Lotka-Volterra example](https://mistea.pages.mia.inra.fr/codes_articles/abcdconformal/julia/LoktaVolterra/ABC_Conformal_LV.html) (3 parameters) -> Very challenging for some extreme parameters.
- [Phytoplankton dynamics in Lake with a toy model example](https://mistea.pages.mia.inra.fr/codes_articles/abcdconformal/julia/Lake_norm/ABC_Conformal_Lake.html) (9 parameters) -> High dimensional example.
## Installation
The package is currently NOT in the Julia general registry (will be soon), but on a local registry, hence to download it just add:
```julia
using Pkg
pkg"registry add https://github.com/dmetivie/LocalRegistry"
```
and then `add` it as a normal package
```julia
Pkg.add("ABCMethods")
# or
pkg> add ABCMethods
```