Science Score: 23.0%
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
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○.zenodo.json file
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✓DOI references
Found 2 DOI reference(s) in README -
○Academic publication links
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✓Committers with academic emails
1 of 8 committers (12.5%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (12.4%) to scientific vocabulary
Keywords from Contributors
Repository
Basic Info
- Host: GitHub
- Owner: DessimozLab
- License: gpl-3.0
- Language: Jupyter Notebook
- Default Branch: master
- Size: 436 KB
Statistics
- Stars: 2
- Watchers: 5
- Forks: 3
- Open Issues: 0
- Releases: 2
Metadata Files
README.md
OmaDB: R wrapper for the OMA REST API
R package providing access to the data in the OMA browser, using the REST API. As such, it requires a stable internet connection to operate. We also provide a similar wrapper for python (https://github.com/DessimozLab/pyOmaDB).
An notebook containing examples of how to use the package is available here.
Citation
If you use our package in your work, please consider citing:
Kaleb K, Warwick Vesztrocy A, Altenhoff A and Dessimoz C. Expanding the Orthologous Matrix (OMA) programmatic interfaces: REST API and the OmaDB packages for R and Python. F1000Research 2019, 8:42 (https://doi.org/10.12688/f1000research.17548.2)
Installation
The package is available via Bioconductor (https://bioconductor.org) and can be installed as follows:
``` if (!requireNamespace("BiocManager")) install.packages("BiocManager") BiocManager::install('OmaDB')
load the package
library(OmaDB)
```
Note that the v2.0 of the package requires R version >= 3.6 and Bioconductor version >=3.9.
The latest version of the OmaDB package can also be directly installed from the github repository as below:
install.packages('devtools')
library(devtools)
install_github('dessimozlab/omadb')
License
OmaDB is free software: you can redistribute it and/or modify it under the terms of the GNU Lesser General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
OmaDB is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU Lesser General Public License for more details. You should have received a copy of the GNU Lesser General Public License along with OmaDB. If not, see http://www.gnu.org/licenses/.
Owner
- Name: Dessimoz Lab
- Login: DessimozLab
- Kind: organization
- Location: Lausanne and London
- Website: http://lab.dessimoz.org
- Repositories: 17
- Profile: https://github.com/DessimozLab
GitHub Events
Total
Last Year
Committers
Last synced: over 2 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| klarakaleb | k****7@h****m | 66 |
| Adrian Altenhoff | a****f@i****h | 58 |
| Nitesh Turaga | n****a@g****m | 12 |
| Laurent Gatto | l****o@g****m | 6 |
| vobencha | v****n@r****g | 2 |
| vobencha | v****a@g****m | 2 |
| lshep | l****d@r****g | 1 |
| Hervé Pagès | h****b@g****m | 1 |
Committer Domains (Top 20 + Academic)
Packages
- Total packages: 1
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Total downloads:
- bioconductor 17,161 total
- Total dependent packages: 2
- Total dependent repositories: 0
- Total versions: 5
- Total maintainers: 2
bioconductor.org: OmaDB
R wrapper for the OMA REST API
- Homepage: https://github.com/DessimozLab/OmaDB
- Documentation: https://bioconductor.org/packages/release/bioc/vignettes/OmaDB/inst/doc/OmaDB.pdf
- License: GPL-3
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Latest release: 2.24.0
published about 1 year ago