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pepr

Project metadata manager for PEPs in R

https://github.com/pepkit/pepr

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
  • ○
    DOI references
  • ○
    Academic publication links
  • ✓
    Committers with academic emails
    1 of 4 committers (25.0%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (8.6%) to scientific vocabulary

Keywords

bioinformatics metadata
Last synced: 6 months ago · JSON representation

Repository

Project metadata manager for PEPs in R

Basic Info
  • Host: GitHub
  • Owner: pepkit
  • License: other
  • Language: R
  • Default Branch: master
  • Homepage: http://pepr.databio.org/
  • Size: 807 KB
Statistics
  • Stars: 3
  • Watchers: 4
  • Forks: 1
  • Open Issues: 4
  • Releases: 10
Topics
bioinformatics metadata
Created over 8 years ago · Last pushed over 1 year ago
Metadata Files
Readme Changelog License

README.md

Downloads CRAN R-CMD-check codecov PEP compatible

The pepr package: Portable Encapsulated Projects in R

pepr is an R package for reading Portable Encapsulated Projects, or PEPs, in R. If you describe your project (configuration and samples) according to this format, you can load all project metadata into R using the pepr package. To test pepr, you can try loading one of the example PEPs.

Complete documentation and API for the pepr R package is at code.databio.org/pepr.

Quick start:

Install from CRAN:

R install.packages("pepr")

Load a project and explore metadata like this:

```R library("pepr") cfgPath = system.file( "extdata", "examplepeps-master", "examplebasic", "project_config.yaml", package = "pepr" ) p = Project(file = cfgPath)

sampleTable(p) config(p) ```

Owner

  • Name: Portable Encapsulated Projects
  • Login: pepkit
  • Kind: organization

Standardized sample metadata structure for biological research

GitHub Events

Total
  • Issues event: 1
Last Year
  • Issues event: 1

Committers

Last synced: over 2 years ago

All Time
  • Total Commits: 330
  • Total Committers: 4
  • Avg Commits per committer: 82.5
  • Development Distribution Score (DDS): 0.203
Past Year
  • Commits: 0
  • Committers: 0
  • Avg Commits per committer: 0.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Michal Stolarczyk s****3@g****m 263
nsheff n****f 62
nsheff n****n@c****g 4
Aaron Gu a****m@v****u 1
Committer Domains (Top 20 + Academic)
virginia.edu: 1 code.databio.org: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 35
  • Total pull requests: 13
  • Average time to close issues: 4 months
  • Average time to close pull requests: 3 months
  • Total issue authors: 5
  • Total pull request authors: 3
  • Average comments per issue: 1.31
  • Average comments per pull request: 0.92
  • Merged pull requests: 12
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 0
  • Pull request authors: 0
  • Average comments per issue: 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
  • nsheff (21)
  • stolarczyk (10)
  • jpsmith5 (2)
  • KasperThystrup (1)
  • Parkerdow (1)
  • vreuter (1)
Pull Request Authors
  • stolarczyk (11)
  • sanghoonio (2)
  • nsheff (1)
Top Labels
Issue Labels
bug (9) enhancement (4) likely-fixed (3) feature (2) question (2) low-priority (1) docs (1)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • cran 280 last-month
  • Total docker downloads: 102
  • Total dependent packages: 0
  • Total dependent repositories: 5
  • Total versions: 3
  • Total maintainers: 1
cran.r-project.org: pepr

Reading Portable Encapsulated Projects

  • Versions: 3
  • Dependent Packages: 0
  • Dependent Repositories: 5
  • Downloads: 280 Last month
  • Docker Downloads: 102
Rankings
Dependent repos count: 13.0%
Docker downloads count: 17.7%
Forks count: 21.0%
Stargazers count: 25.5%
Dependent packages count: 28.7%
Average: 31.9%
Downloads: 85.5%
Maintainers (1)
nathan@code.databio.org
Last synced: 6 months ago

Dependencies

DESCRIPTION cran
  • data.table * imports
  • methods * imports
  • pryr * imports
  • stringr * imports
  • yaml * imports
  • knitr * suggests
  • rmarkdown * suggests
  • testthat * suggests
.github/workflows/R-CMD-check.yml 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/pkgdown.yml actions
  • JamesIves/github-pages-deploy-action v4.4.1 composite
  • actions/checkout v3 composite
  • r-lib/actions/setup-pandoc v2 composite
  • r-lib/actions/setup-r v2 composite
  • r-lib/actions/setup-r-dependencies v2 composite