mixmod

Supervised, unsupervised and semi-supervised classification with mixture modelling

https://github.com/mixmod/mixmod

Science Score: 44.0%

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

✓
CITATION.cff file
Found CITATION.cff file
✓
codemeta.json file
Found codemeta.json file
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.zenodo.json file
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DOI references
Found 2 DOI reference(s) in README
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Academic publication links
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Committers with academic emails
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Institutional organization owner
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JOSS paper metadata
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Scientific vocabulary similarity
Low similarity (11.2%) to scientific vocabulary

Keywords

clustering cpp mixture-model r

Last synced: 6 months ago · JSON representation ·

Repository

Supervised, unsupervised and semi-supervised classification with mixture modelling

Basic Info

Host: GitHub
Owner: mixmod
Language: Jupyter Notebook
Default Branch: master
Homepage:
Size: 7.05 MB

Statistics

Stars: 3
Watchers: 1
Forks: 3
Open Issues: 3
Releases: 5

Topics

clustering cpp mixture-model r

Created about 4 years ago · Last pushed about 1 year ago

Metadata Files

Readme Citation

mixmod

Mixmod is a software package for Model-Based supervised and unsupervised classification on qualitative, quantitative and mixed data.

Available components:

A package for R: Rmixmod
A module for Python: Pymixmod
A computational library: mixmodLib (C++)
A Graphical User Interface: mixmodGUI

Main Statistical functionalities:

Likelihood maximization with EM, CEM and SEM algorithm
Parsimonious models
- 14 models for quantitative data (Gaussian mixture models)
- 5 models for qualitative data (Multinomial mixture models)
- 20 models for mixed data (quantitative/qualitative)
- 8 specific models for High Dimension
Selection criteria: BIC, ICL, NEC, CV

Previous repository: https://gforge.inria.fr/projects/mixmod

Folder structure
C++ components
Rmixmod
- R Requirements
- Build
PyMixmod
Docs
Citation
License
Contributing

Folder structure

Rmixmod R interface of the C++ mixmod library
mixmodLib C++ mixmod library
mixmodIOStream C++ library to manage IO
mixmodCLI Command Line Interface
Pymixmod Python interface
mixmodGUI unmaintained
mixmodMVC unmaintained

C++ components

Requirements

Requirements for mixmoLib:

bash sudo apt install -y cmake libeigen3-dev

Extra requirement for mixmodIOStream

bash sudo apt install -y libxml++2.6-dev

Compilation

A main CMake file is used to compiled mixmodLib, mixmodIOStream and mixmodCLI.

Compilation options:

-DCMAKE_INSTALL_PREFIX: installation folder
-DCMAKE_BUILD_TYPE: Debug or Release (default)
-DCMAKE_CXX_FLAGS: extra c++ compilation flags (optional)
-DMIXMOD_BUILD_IOSTREAM: ON or OFF (default). Compile or not mixmodIOStream
-DMIXMOD_BUILD_CLI: ON or OFF (default). Compile or not mixmodCLI. It requires -DMIXMOD_BUILD_IOSTREAM=ON
-DMIXMOD_BUILD_EXAMPLES: ON or OFF (default)
-DMIXMOD_ENABLE_OPENMP: OFF or ON (default). Enable OpenMP or not.

Generate makefile:

bash mkdir build cd build cmake -DCMAKE_INSTALL_PREFIX=~/usr/local/ -DCMAKE_CXX_FLAGS="-Wall -Wextra -D_GLIBCXX_ASSERTIONS" ..

Compile:

bash make install -j2

Examples

See mixmodLib/EXAMPLES for some examples.

Rmixmod

R interface of the C++ mixmod library.

R Requirements

Install the following R packages in order to build Rmixmod:

r install.packages(c("Rcpp", "RcppEigen", "devtools"))

Build

In a terminal, run:

sh ./build_rmixmod.sh

It creates a directory named Rmixmod_[version] containing the package archive.

The package can be installed running:

sh R CMD INSTALL Rmixmod_[version]/Rmixmod_[version].tar.gz

and checked running:

sh R CMD check --as-cran Rmixmod_[version]/Rmixmod_[version].tar.gz

PyMixmod

Python interface of the C++ mixmod library.

See the dedicated README.

Docs

See the doc folder to find the different paper about Rmixmod, a statistical documentation and a user guide for mixmod.

Citation

Lebret, R., Iovleff, S., Langrognet, F., Biernacki, C., Celeux, G., & Govaert, G. (2015). Rmixmod: The R Package of the Model-Based Unsupervised, Supervised, and Semi-Supervised Classification Mixmod Library. Journal of Statistical Software, 67(6), 1–29. https://doi.org/10.18637/jss.v067.i06

See CITATION.bib

License

mixmod is distributed under the GPL v3 license

Contributing

Use the .clang-format file to format the c++ code.
Use lintr to format the R code with the following .lintr file:

text linters: linters_with_defaults( line_length_linter(127), object_name_linter = NULL )

Citation (CITATION.bib)

@article{rmixmod,
    title={Rmixmod: The R Package of the Model-Based Unsupervised, Supervised, and Semi-Supervised Classification Mixmod Library},
    volume={67},
    url={https://www.jstatsoft.org/index.php/jss/article/view/v067i06},
    doi={10.18637/jss.v067.i06},
    abstract={Mixmod is a well-established software package for fitting mixture models of multivariate Gaussian or multinomial probability distribution functions to a given dataset with either a clustering, a density estimation or a discriminant analysis purpose. The Rmixmod S4 package provides an interface from the R statistical computing environment to the C++ core library of Mixmod (mixmodLib). In this article, we give an overview of the model-based clustering and classification methods implemented, and we show how the R package Rmixmod can be used for clustering and discriminant analysis.},
    number={6},
    journal={Journal of Statistical Software},
    author={Lebret, Rémi and Iovleff, Serge and Langrognet, Florent and Biernacki, Christophe and Celeux, Gilles and Govaert, Gérard},
    year={2015},
    pages={1–29}
}

GitHub Events

Total

Push event: 2
Pull request review event: 1
Pull request event: 2

Last Year

Push event: 2
Pull request review event: 1
Pull request event: 2

Committers

Last synced: over 2 years ago

All Time

Total Commits: 21
Total Committers: 3
Avg Commits per committer: 7.0
Development Distribution Score (DDS): 0.381

Past Year

Commits: 5
Committers: 2
Avg Commits per committer: 2.5
Development Distribution Score (DDS): 0.2

Top Committers

Name	Email	Commits
Quentin Grimonprez	q**z@d**m	13
Quentin Grimonprez	q**m@y**r	6
Julien Schueller	s**r@p**m	2

Committer Domains (Top 20 + Academic)

phimeca.com: 1 diagrams-technologies.com: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time

Total issues: 11
Total pull requests: 24
Average time to close issues: 8 months
Average time to close pull requests: 21 days
Total issue authors: 3
Total pull request authors: 2
Average comments per issue: 0.73
Average comments per pull request: 0.42
Merged pull requests: 23
Bot issues: 0
Bot pull requests: 0

Past Year

Issues: 0
Pull requests: 1
Average time to close issues: N/A
Average time to close pull requests: about 17 hours
Issue authors: 0
Pull request authors: 1
Average comments per issue: 0
Average comments per pull request: 0.0
Merged pull requests: 1
Bot issues: 0
Bot pull requests: 0

View more stats

Top Authors

Issue Authors

Quentin62 (9)
jschueller (1)
mannannannan (1)

Pull Request Authors

jschueller (17)
Quentin62 (11)

Top Labels

Issue Labels

C++ (4) bug (1)

Pull Request Labels

Packages

Total packages: 1
Total downloads:
- cran 1,096 last-month
Total docker downloads: 21,827

Total dependent packages: 12
Total dependent repositories: 17
Total versions: 21
Total maintainers: 1

cran.r-project.org: Rmixmod

Classification with Mixture Modelling

Documentation: http://cran.r-project.org/web/packages/Rmixmod/Rmixmod.pdf
License: GPL-3
Latest release: 2.1.10
published about 2 years ago

Versions: 21
Dependent Packages: 12
Dependent Repositories: 17
Downloads: 1,096 Last month
Docker Downloads: 21,827

Rankings

Dependent packages count: 4.6%

Dependent repos count: 6.9%

Downloads: 9.1%

Forks count: 14.1%

Average: 14.8%

Stargazers count: 25.5%

Docker downloads count: 28.5%

Maintainers (1)

quentingrim@yahoo.fr

Last synced: 6 months ago

Dependencies

Rmixmod/DESCRIPTION cran

R >= 2.12.0 depends
Rcpp >= 0.8.0 depends
methods * imports

.github/workflows/R-CMD-check.yaml actions

actions/checkout v3 composite
r-lib/actions/check-r-package v2 composite
r-lib/actions/setup-pandoc v2 composite
r-lib/actions/setup-r v2 composite
r-lib/actions/setup-r-dependencies v2 composite

.github/workflows/build.yml actions

actions/checkout v3 composite

mixmodGUI/Docker/Dockerfile docker

ubuntu 14.04 build

Pymixmod/setup.py pypi

mixmod

Science Score: 44.0%

Keywords

Repository

Basic Info

Statistics

Topics

Metadata Files

README.md

mixmod

Table of contents

Folder structure

C++ components

Requirements

Compilation

Examples

Rmixmod

R Requirements

Build

PyMixmod

Docs

Citation

License

Contributing

Citation (CITATION.bib)

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

cran.r-project.org: Rmixmod

Rankings

Maintainers (1)

Dependencies