Science Score: 36.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
○DOI references
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○Academic publication links
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✓Committers with academic emails
3 of 31 committers (9.7%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (10.4%) to scientific vocabulary
Keywords from Contributors
Repository
An R client for CellBase, the OpenCB project
Statistics
- Stars: 2
- Watchers: 3
- Forks: 1
- Open Issues: 1
- Releases: 1
Metadata Files
README.md
Overview
This R package makes use of the exhaustive RESTful Web service API that has been implemented for the Cellabase database. It enable researchers to query and obtain a wealth of biological information from a single database saving a lot of time. Another benefit is that researchers can easily make queries about different biological topics and link all this information together as all information is integrated.
Currently Homo sapiens, Mus musculus and a total of 48 species are available and many others will be included soon. Results returned from the cellbase queries are parsed into R data.frames and other common R data strctures so users can readily get into downstream anaysis. NB. Due to some maintance and updares on the Cellbase Server some functionality is not working, more specifically all the variants and snp annotations are not working, this will be resolved shortly.
Documentation
You can find CellBase documentation and tutorials at: https://github.com/opencb/cellbase/wiki.
For documenting RESTful web services Swagger has been set-up and is available at http://bioinfo.hpc.cam.ac.uk/cellbase/webservices/.
Issues Tracking
You can report bugs or request new features at GitHub issue tracking.
Release Notes and Roadmap
Releases notes are available at GitHub releases.
Roadmap is available at GitHub milestones. You can report bugs or request new features at GitHub issue tracking.
Maintainers
We recommend to contact CellBase developers by writing to OpenCB mailing list opencb@googlegroups.com. The main developers and maintainers are: * Ignacio Medina (im411@cam.ac.uk) (Founder and Project Leader) * Javier Lopez (javier.lopez@genomicsengland.co.uk) * Mohammed OE (melsiddieg@opencb.org)
Owner
- Name: Mohammed OE Abdallah
- Login: melsiddieg
- Kind: user
- Location: Vancouver, Canada
- Company: University of British Columbia
- Repositories: 12
- Profile: https://github.com/melsiddieg
Post-Doctoral Fellow, Bioinformatician Centre for Molecular Medicine and Therapeutics, University of British Columbia
GitHub Events
Total
Last Year
Committers
Last synced: over 2 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| imedina | i****s@g****m | 461 |
| Javi Lopez | j****d@g****m | 273 |
| Pablo Arce | p****e@b****g | 188 |
| melsiddieg | m****g@g****m | 170 |
| imedina | i****a@c****s | 125 |
| Javi Lopez | f****z@e****k | 109 |
| Pablo Arce | p****a@g****m | 53 |
| Swaathik | s****k@g****m | 53 |
| marnau | m****1@g****m | 47 |
| Francisco Salavert Torres | f****t@c****s | 22 |
| lcruz | l****z@j****s | 18 |
| frasator | f****r@g****m | 18 |
| javi | j****i@j****) | 16 |
| mbleda | m****a@g****m | 10 |
| Jacobo Coll Moragón | j****7@g****m | 8 |
| Alejandro Alemán | a****n@c****s | 8 |
| Cristina Yenyxe Gonzalez Garcia | c****e@e****k | 6 |
| Antonio | a****r@b****g | 5 |
| antonior | a****r@a****) | 4 |
| jpflorido | j****o@b****g | 3 |
| Hervé Pagès | h****s@f****g | 2 |
| Nitesh Turaga | n****a@g****m | 2 |
| Herve Pages | h****s@f****g | 2 |
| vobencha | v****a@g****m | 2 |
| vobencha | v****n@r****g | 2 |
| Mohammed Abdallah | m****h@M****l | 1 |
| Martin Morgan | m****n@f****g | 1 |
| Cristina Yenyxe Gonzalez Garcia | c****z@c****s | 1 |
| Milan Simonovic | m****c@g****m | 1 |
| Ignacio Medina | i****a@e****k | 1 |
| and 1 more... | ||
Committer Domains (Top 20 + Academic)
Packages
- Total packages: 1
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Total downloads:
- bioconductor 15,278 total
- Total dependent packages: 0
- Total dependent repositories: 0
- Total versions: 6
- Total maintainers: 1
bioconductor.org: cellbaseR
Querying annotation data from the high performance Cellbase web
- Homepage: https://github.com/melsiddieg/cellbaseR
- Documentation: https://bioconductor.org/packages/release/bioc/vignettes/cellbaseR/inst/doc/cellbaseR.pdf
- License: Apache License (== 2.0)
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Latest release: 1.32.0
published about 1 year ago
Rankings
Maintainers (1)
Dependencies
- R >= 3.4 depends
- BiocParallel * imports
- R.utils * imports
- Rsamtools * imports
- data.table * imports
- doParallel * imports
- foreach * imports
- httr * imports
- jsonlite * imports
- methods * imports
- parallel * imports
- pbapply * imports
- tidyr * imports
- utils * imports
- BiocStyle * suggests
- Gviz * suggests
- VariantAnnotation * suggests
- knitr * suggests
- rmarkdown * suggests
- R >= 3.4 depends
- BiocParallel * imports
- R.utils * imports
- Rsamtools * imports
- data.table * imports
- doParallel * imports
- foreach * imports
- httr * imports
- jsonlite * imports
- methods * imports
- parallel * imports
- pbapply * imports
- tidyr * imports
- utils * imports
- BiocStyle * suggests
- Gviz * suggests
- VariantAnnotation * suggests
- knitr * suggests
- rmarkdown * suggests
- R >= 3.4 depends
- BiocParallel * imports
- R.utils * imports
- Rsamtools * imports
- data.table * imports
- doParallel * imports
- foreach * imports
- httr * imports
- jsonlite * imports
- methods * imports
- parallel * imports
- pbapply * imports
- tidyr * imports
- utils * imports
- BiocStyle * suggests
- Gviz * suggests
- VariantAnnotation * suggests
- knitr * suggests
- rmarkdown * suggests