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toxpiR

toxpiR R package for the Toxicological Priority Index (ToxPi) algorithm.

https://github.com/toxpi/toxpir

Science Score: 36.0%

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
  • ○
    Academic publication links
  • ✓
    Committers with academic emails
    2 of 7 committers (28.6%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (14.1%) to scientific vocabulary

Keywords

data-science modeling r r-package toxicology
Last synced: 6 months ago · JSON representation

Repository

toxpiR R package for the Toxicological Priority Index (ToxPi) algorithm.

Basic Info
Statistics
  • Stars: 11
  • Watchers: 2
  • Forks: 4
  • Open Issues: 7
  • Releases: 3
Topics
data-science modeling r r-package toxicology
Created about 4 years ago · Last pushed 6 months ago
Metadata Files
Readme Changelog Contributing License

README.md

toxpiR

Project Status: Active – The project has reached a stable, usable state and is being actively developed. R-CMD-check cran-version downloads codecov

R package for the Toxicological Priority Index (ToxPi) prioritization algorithm. Package developed and maintained by the Reif Lab (Note that David Reif has moved to NIH).

Installation

Current stable release (CRAN):

r install.packages("toxpiR")

Current stable release (Build from GitHub):

```r remotes::install_github("ToxPi/toxpiR", dependencies = TRUE)

Note: Users may need to ensure "remotes" package and packages requiring "BiocManager" are installed before building package.

if (!require(remotes)) install.packages("remotes")

if (!require(BiocManager, quietly = TRUE)) { install.packages("BiocManager") } BiocManager::install(c("S4Vectors","BiocGenerics"))

```

Current stable release (Build from GitHub with vignettes):

```r remotes::installgithub("ToxPi/toxpiR", dependencies = TRUE, buildvignettes = TRUE)

Note: Building packages with vignettes requires the package "pandoc" to be installed. ```

Owner

  • Name: ToxPi
  • Login: ToxPi
  • Kind: organization

GitHub Events

Total
  • Issues event: 6
  • Watch event: 2
  • Push event: 11
  • Create event: 2
Last Year
  • Issues event: 6
  • Watch event: 2
  • Push event: 11
  • Create event: 2

Committers

Last synced: 6 months ago

All Time
  • Total Commits: 48
  • Total Committers: 7
  • Avg Commits per committer: 6.857
  • Development Distribution Score (DDS): 0.458
Past Year
  • Commits: 3
  • Committers: 2
  • Avg Commits per committer: 1.5
  • Development Distribution Score (DDS): 0.333
Top Committers
Name Email Commits
Dayne Filer d****r@g****m 26
SkylarMarvel s****l@n****u 11
Dillon Lloyd 5****6 3
David Reif 4****f 3
Preethi Thunga p****a@n****u 2
Jonathon Fleming j****9@g****m 2
Jonathon-Fleming 6****g 1
Committer Domains (Top 20 + Academic)
ncsu.edu: 2

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 15
  • Total pull requests: 13
  • Average time to close issues: 9 months
  • Average time to close pull requests: 1 day
  • Total issue authors: 6
  • Total pull request authors: 5
  • Average comments per issue: 1.6
  • Average comments per pull request: 0.15
  • Merged pull requests: 11
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 7
  • Pull requests: 4
  • Average time to close issues: 5 days
  • Average time to close pull requests: 3 days
  • Issue authors: 3
  • Pull request authors: 2
  • Average comments per issue: 0.29
  • Average comments per pull request: 0.25
  • Merged pull requests: 4
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • flemingjf (5)
  • daynefiler (5)
  • mattjmeier (2)
  • patlewig (1)
  • ndaly15 (1)
  • qianyulia (1)
Pull Request Authors
  • flemingjf (6)
  • daynefiler (6)
  • SkylarMarvel (4)
  • Jonathon-Fleming (1)
  • davidmreif (1)
  • ghost (1)
Top Labels
Issue Labels
enhancement (4) help wanted (1) documentation (1)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • cran 217 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 4
  • Total maintainers: 1
cran.r-project.org: toxpiR

Create ToxPi Prioritization Models

  • Versions: 4
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 217 Last month
Rankings
Forks count: 21.9%
Stargazers count: 26.2%
Dependent packages count: 29.8%
Dependent repos count: 35.5%
Average: 37.6%
Downloads: 74.6%
Maintainers (1)
jffleming0129@gmail.com
Last synced: 6 months ago

Dependencies

.github/workflows/R-CMD-check.yaml actions
  • actions/checkout v2 composite
  • r-lib/actions/check-r-package v1 composite
  • r-lib/actions/setup-pandoc v1 composite
  • r-lib/actions/setup-r v1 composite
  • r-lib/actions/setup-r-dependencies v1 composite
.github/workflows/pkgdown.yaml actions
  • actions/checkout v2 composite
  • r-lib/actions/setup-pandoc v1 composite
  • r-lib/actions/setup-r v1 composite
  • r-lib/actions/setup-r-dependencies v1 composite
.github/workflows/test-coverage.yaml actions
  • actions/checkout v2 composite
  • r-lib/actions/setup-r v1 composite
  • r-lib/actions/setup-r-dependencies v1 composite
DESCRIPTION cran
  • R >= 4.0 depends
  • BiocGenerics * imports
  • S4Vectors * imports
  • grDevices * imports
  • grid * imports
  • methods * imports
  • pryr * imports
  • rlang * imports
  • stats * imports
  • tidyr * imports
  • utils * imports
  • DBI * suggests
  • covr * suggests
  • knitr * suggests
  • rmarkdown * suggests
  • testthat >= 3.0.0 suggests