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biomaRt

R package providing query functionality to BioMart instances like Ensembl

https://github.com/huber-group-embl/biomart

Science Score: 26.0%

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
  • ○
    Academic email domains
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (9.9%) to scientific vocabulary

Keywords

bioconductor biomart ensembl r
Last synced: 10 months ago · JSON representation

Repository

R package providing query functionality to BioMart instances like Ensembl

Basic Info
Statistics
  • Stars: 43
  • Watchers: 3
  • Forks: 16
  • Open Issues: 51
  • Releases: 0
Topics
bioconductor biomart ensembl r
Created almost 9 years ago · Last pushed 10 months ago
Metadata Files
Readme Changelog

README.md

biomaRt

The package provides an R interface to datasets that provide access via the BioMart software suite.

Current Status

| GitHub Actions | BioC | Test Coverage | | ------------- |-------------| -----| | R-CMD-check | BioC Status | Codecov |

Contact

For bug reports, please register an issue here on Github. For usage queries please post a question on the Bioconductor Support Forum.

Funding

Funding for continued development and maintenance of this package is provided by the German Network for Bioinformatics Infrastructure

Owner

  • Name: EMBL Huber Group
  • Login: Huber-group-EMBL
  • Kind: organization

Repository for joint projects by members and ex-members of the Huber group at EMBL. Please see also individuals' pages for further repositories.

GitHub Events

Total
  • Issues event: 11
  • Watch event: 6
  • Delete event: 7
  • Issue comment event: 22
  • Push event: 34
  • Pull request event: 20
  • Create event: 11
Last Year
  • Issues event: 11
  • Watch event: 6
  • Delete event: 7
  • Issue comment event: 22
  • Push event: 34
  • Pull request event: 20
  • Create event: 11

Issues and Pull Requests

Last synced: 10 months ago

All Time
  • Total issues: 88
  • Total pull requests: 20
  • Average time to close issues: 4 months
  • Average time to close pull requests: 17 days
  • Total issue authors: 76
  • Total pull request authors: 5
  • Average comments per issue: 2.44
  • Average comments per pull request: 0.3
  • Merged pull requests: 12
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 4
  • Pull requests: 15
  • Average time to close issues: 19 days
  • Average time to close pull requests: about 14 hours
  • Issue authors: 3
  • Pull request authors: 1
  • Average comments per issue: 1.75
  • Average comments per pull request: 0.07
  • Merged pull requests: 9
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • grimbough (7)
  • HenrikBengtsson (2)
  • sigven (2)
  • danielcgingerich (2)
  • LiNk-NY (2)
  • corinabioinformatic (2)
  • gtollefson (2)
  • yuewangpanda (1)
  • pallavisurana1 (1)
  • saphir746 (1)
  • Maryan12m (1)
  • hpages (1)
  • evareisinger (1)
  • Gurlaz (1)
  • ytlin610 (1)
Pull Request Authors
  • Bisaloo (15)
  • grimbough (2)
  • lubianat (1)
  • LiNk-NY (1)
  • manolisathan (1)
Top Labels
Issue Labels
enhancement (2) help wanted (1)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • bioconductor 4,550,115 total
  • Total dependent packages: 124
  • Total dependent repositories: 0
  • Total versions: 9
  • Total maintainers: 1
bioconductor.org: biomaRt

Interface to BioMart databases (i.e. Ensembl)

  • Versions: 9
  • Dependent Packages: 124
  • Dependent Repositories: 0
  • Downloads: 4,550,115 Total
Rankings
Dependent repos count: 0.0%
Downloads: 0.7%
Dependent packages count: 0.9%
Average: 2.6%
Forks count: 4.7%
Stargazers count: 6.7%
Maintainers (1)
grimbough@gmail.com
Last synced: 10 months ago

Dependencies

DESCRIPTION cran
  • methods * depends
  • AnnotationDbi * imports
  • BiocFileCache * imports
  • XML >= 3.99 imports
  • digest * imports
  • httr * imports
  • progress * imports
  • rappdirs * imports
  • stringr * imports
  • utils * imports
  • xml2 * imports
  • BiocStyle * suggests
  • knitr * suggests
  • mockery * suggests
  • rmarkdown * suggests
  • testthat * suggests
  • webmockr * suggests
.github/workflows/auto-comment.yml actions
.github/workflows/main.yml actions
  • actions/checkout v3 composite
  • actions/upload-artifact v3 composite
  • grimbough/bioc-actions/build-install-check v1 composite
  • grimbough/bioc-actions/run-BiocCheck v1 composite
  • grimbough/bioc-actions/setup-bioc v1 composite
  • r-lib/actions/setup-pandoc v2 composite
  • r-lib/actions/setup-r-dependencies v2 composite