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xploreaop

The public version of the 'XploreAOP' Shiny application to interactively visualize AOP Networks

https://github.com/ontox-project/xploreaop

Science Score: 49.0%

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
    Found .zenodo.json file
  • ✓
    DOI references
    Found 3 DOI reference(s) in README
  • ✓
    Academic publication links
    Links to: zenodo.org
  • ○
    Committers with academic emails
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (12.1%) to scientific vocabulary

Keywords

aop network shiny toxicology visualization
Last synced: 6 months ago · JSON representation

Repository

The public version of the 'XploreAOP' Shiny application to interactively visualize AOP Networks

Basic Info
Statistics
  • Stars: 1
  • Watchers: 1
  • Forks: 1
  • Open Issues: 4
  • Releases: 0
Topics
aop network shiny toxicology visualization
Created over 2 years ago · Last pushed almost 2 years ago
Metadata Files
Readme License Citation Roadmap

README.md

DOI

xploreaop

{xploreaop} is an R package and Shiny webapplication to visualize Adverse Outcome Pathway (AOP) networks. So far data has been included to interactively explore the AOPs for two liver outcomes: Cholestasis and Steatosis.

Publication

This Shiny app was developed in conjunction with the scientific publication

van Ertvelde, J., Verhoeven, A., Maerten, A., Cooreman, A., Santos Rodrigues, B. D., Sanz-Serrano, J., Mihajlovic, M., Tripodi, I., Teunis, M., Jover, R., Luechtefeld, T., Vanhaecke, T., Jiang, J., & Vinken, M. (2023). Optimization of an adverse outcome pathway network on chemical-induced cholestasis using an artificial intelligence-assisted data collection and confidence level quantification approach. Journal of biomedical informatics, 145, 104465. https://doi.org/10.1016/j.jbi.2023.104465

Installation

This Github repository is an R package and can be installed in two ways:

  1. Cloning the repo to your local machine
  2. Installing directly from Github

We recommend installing directly from Github if you want to view the app. If you would like to review the code or adapt, we encourage forks and pull requests

To install the package directly from the Github repo, run in R: install.packages("pak") pak::pkg_install("ontox-project/xploreaop")

To install from a local clone, run in R from the root of the cloned repo: install.packages("devtools") devtools::install(".")

Licence

This work comes with a permissive licence CC-BY 4.0 which can be viewed here

Furture work and development

This application is actively under development and we encourage people to contribute or reflect on the work. If you find a bug, would like a feature added, or have a great idea to add to this work, please create a new issue. We iniated a roadmap, based on reviewer comments and other peer feedback here

Owner

  • Name: ontox-project
  • Login: ontox-project
  • Kind: organization

GitHub Events

Total
Last Year

Committers

Last synced: about 2 years ago

All Time
  • Total Commits: 9
  • Total Committers: 1
  • Avg Commits per committer: 9.0
  • Development Distribution Score (DDS): 0.0
Past Year
  • Commits: 9
  • Committers: 1
  • Avg Commits per committer: 9.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Marc m****s@h****l 9
Committer Domains (Top 20 + Academic)
hu.nl: 1

Issues and Pull Requests

Last synced: about 2 years ago

All Time
  • Total issues: 4
  • Total pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Total issue authors: 2
  • Total pull request authors: 0
  • Average comments per issue: 0.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 4
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 2
  • Pull request authors: 0
  • Average comments per issue: 0.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • Maddocent (3)
  • egonw (1)
Pull Request Authors
Top Labels
Issue Labels
bug (2) enhancement (1)
Pull Request Labels

Dependencies

DESCRIPTION cran
  • R >= 4.0 depends
  • dplyr * imports
  • easyPubMed * imports
  • ggraph * imports
  • htmlwidgets * imports
  • igraph * imports
  • magrittr * imports
  • networkD3 * imports
  • readr * imports
  • shiny * imports
  • shinyWidgets * imports
  • tidygraph * imports
  • visNetwork * imports