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bnmonitor

bnmonitor R package

https://github.com/manueleleonelli/bnmonitor

Science Score: 23.0%

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

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ○
    .zenodo.json file
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    DOI references
  • ○
    Academic publication links
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    Committers with academic emails
    1 of 3 committers (33.3%) from academic institutions
  • ○
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    JOSS paper metadata
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    Scientific vocabulary similarity
    Low similarity (17.9%) to scientific vocabulary
Last synced: 11 months ago · JSON representation

Repository

bnmonitor R package

Basic Info
Statistics
  • Stars: 3
  • Watchers: 2
  • Forks: 0
  • Open Issues: 0
  • Releases: 0
Created over 6 years ago · Last pushed almost 2 years ago
Metadata Files
Readme Changelog

README.Rmd 

---
output: github_document
---



```{r, include = FALSE}
knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>",
  fig.path = "man/figures/README-",
  out.width = "100%"
)
```

# bnmonitor 

[![CRAN status](https://www.r-pkg.org/badges/version/bnmonitor)](https://cran.r-project.org/package=bnmonitor)
[![Last-commit](https://img.shields.io/github/last-commit/manueleleonelli/bnmonitor)](https://github.com/manueleleonelli/bnmonitor/commits/main)
[![Lifecycle: stable](https://img.shields.io/badge/lifecycle-stable-green.svg)](https://lifecycle.r-lib.org/articles/stages.html#stable)
[![downloads](https://cranlogs.r-pkg.org/badges/bnmonitor)](https://shinyus.ipub.com/cranview/)
[![total](https://cranlogs.r-pkg.org/badges/grand-total/bnmonitor)](https://shinyus.ipub.com/cranview/)




`bnmonitor` is a package for sensitivity analysis and robustness in Bayesian networks (BNs). If you use the package in your work please consider citing it as 

```{r}
citation("bnmonitor")
```

## Installation 

The package `bnmonitor` can be installed from CRAN using the command 
```{r warning = FALSE, message = FALSE, eval = F}
install.packages("bnmonitor")
```
and loaded in R with
```{r}
library(bnmonitor)
```
Note that `bnmonitor` requires the package `gRain` which, while on CRAN, depends on packages that are on Bioconductor both directly and through the `gRbase` package, which depends on `RBGL`:
```{r eval =F}
install.packages("BiocManager")
BiocManager::install(c("graph", "Rgraphviz", "RBGL"))
install.packages("gRain")
```

## Overview

`bnmonitor` provides a suite of function to investigate either a data-learnt or an expert elicited BN. Its functions can be classified into the following main areas:

 - **Parametric sensitivity analysis**: Investigate the effect of changes in some of the parameter values in a Bayesian network and quantify the difference between the original and perturbed Bayesian networks using dissimilarity measures (both for discrete and Gaussian BNs).
 
 - **Robustness to data**: Verify how well a Bayesian network fits a specific dataset that was used either for learning or for testing (only for discrete BNs).

 - **Node influence**: Quantify how much the nodes of a Bayesian network influence an output node of interest (only for discrete BNs).
 
 - **Edge strength**: Assess the strength of the edges of a Bayesian network (only for discrete BNs).
 
 - **Other investigations**: Including the diameter of the conditional probability tables, measures of asymmetric independence, and level amalgamation.










Refer to the articles section for case studies showcasing the use of the `bnmonitor` functions.

## Papers where bnmonitor is used

 - Görgen, C., & Leonelli, M. (2020). Model-preserving sensitivity analysis for families of Gaussian distributions. Journal of Machine Learning Research, 21(84), 1-32.
 
 - Leonelli, M., & Riccomagno, E. (2022). A geometric characterization of sensitivity analysis in monomial models. International Journal of Approximate Reasoning, 151, 64-84.
 
 - Leonelli, M., Ramanathan, R., & Wilkerson, R. L. (2023). Sensitivity and robustness analysis in Bayesian networks with the bnmonitor R package. Knowledge-Based Systems, 278, 110882.
 
 - Leonelli, M., Smith, J. Q., & Wright, S. K. (2024). The diameter of a stochastic matrix: A new measure for sensitivity analysis in Bayesian networks. arXiv preprint arXiv:2407.04667.

Owner

  • Name: Manuele Leonelli
  • Login: manueleleonelli
  • Kind: user
  • Location: Madrid
  • Company: IE University

Assistant Professor of Statistics working in Bayesian Statistics, Machine Learning and Probabilistic Graphical Models

GitHub Events

Total
Last Year

Committers

Last synced: almost 3 years ago

All Time
  • Total Commits: 109
  • Total Committers: 3
  • Avg Commits per committer: 36.333
  • Development Distribution Score (DDS): 0.028
Past Year
  • Commits: 2
  • Committers: 1
  • Avg Commits per committer: 2.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Your name here m****i@g****m 106
Manuele Leonelli 3****i 2
MANUELE LEONELLI M****i@i****u 1
Committer Domains (Top 20 + Academic)
ie.edu: 1

Issues and Pull Requests

Last synced: 12 months ago

All Time
  • Total issues: 2
  • Total pull requests: 0
  • Average time to close issues: 22 days
  • Average time to close pull requests: N/A
  • Total issue authors: 2
  • Total pull request authors: 0
  • Average comments per issue: 3.5
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 1
  • Pull requests: 0
  • Average time to close issues: 1 day
  • Average time to close pull requests: N/A
  • Issue authors: 1
  • Pull request authors: 0
  • Average comments per issue: 4.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • vsocrates (1)
  • FridolinHaag (1)
Pull Request Authors
Top Labels
Issue Labels
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • cran 357 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 8
  • Total maintainers: 1
cran.r-project.org: bnmonitor

An Implementation of Sensitivity Analysis in Bayesian Networks

  • Versions: 8
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 357 Last month
Rankings
Stargazers count: 26.2%
Forks count: 28.8%
Dependent packages count: 29.8%
Average: 33.3%
Dependent repos count: 35.5%
Downloads: 46.4%
Maintainers (1)
manuele.leonelli@ie.edu
Last synced: 12 months ago

Dependencies

DESCRIPTION cran
  • RColorBrewer * imports
  • bnlearn * imports
  • dplyr * imports
  • gRain * imports
  • gRbase * imports
  • ggplot2 * imports
  • graphics * imports
  • purrr * imports
  • qgraph * imports
  • reshape2 * imports
  • rlang * imports
  • tidyr * imports
  • knitr * suggests
  • rmarkdown * suggests
  • testthat * suggests
.github/workflows/pkgdown.yaml actions
  • JamesIves/github-pages-deploy-action 4.1.4 composite
  • actions/checkout v2 composite
  • r-lib/actions/setup-pandoc v2 composite
  • r-lib/actions/setup-r v2 composite
  • r-lib/actions/setup-r-dependencies v2 composite