biocdockermanager
Bioconductor package to manage docker images
Science Score: 36.0%
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Low similarity (8.9%) to scientific vocabulary
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Repository
Bioconductor package to manage docker images
Basic Info
- Host: GitHub
- Owner: Bioconductor
- Language: R
- Default Branch: devel
- Homepage: https://github.com/nturaga/BiocDockerManager
- Size: 82 KB
Statistics
- Stars: 1
- Watchers: 3
- Forks: 1
- Open Issues: 1
- Releases: 1
Metadata Files
README.md
BiocDockerManager - An R Package to manage Bioconductor Docker Images
The BiocDockerManager package was designed to work analogous to BiocManager but for docker images. Use the BiocDockerManager package manage docker images provided by the Bioconductor project. The package provides convenient ways to install images, update images, confirm validity and find which Bioconductor based docker images are available.
Install
Preliminary Step 0: Install Docker Desktop on your local machine, and sign in https://docs.docker.com/get-docker/
Install the package BiocManager, then install BiocDockerManager in
your R session
if (!require("BiocManager"))
install.packages("BiocManager")
BiocManager::install("BiocDockerManager")
Example Workflow
We hope to provide functionality which is useful to R and Bioconductor Docker users in the form of an R package.
The typical workflow would look like the following:
First, you check the available() images. Then you install() a
required image say bioconductor/bioconductor_docker:devel.
```
1. Check available images
BiocDockerManager::available()
2. Install a new image
BiocDockerManager::install( repository = "bioconductor/bioconductor_docker", tag = "devel" ) ```
Once some time has passed and if you are not sure if you image is up
to date, you have to check if the image is valid().
Then, install() an update if the validity check returns that it is
out of date. Check the version() of the latest image to make sure
you understand the consequences of updating.
```
3. Check if image is valid
BiocDockerManager::valid( "bioconductor/bioconductor_docker", tag = "devel" )
4. Download update to image
BiocDockerManager::install( "bioconductor/bioconductor_docker", tag = "devel" )
5. Check version
BiocDockerManager::version( "bioconductor/bioconductor_docker", tag = "devel" ) ```
Help
Please read the package vignette for more help.
Acknowledgements
Martin Morgan (@mtmorgan) and Kayla Morell (@Kayla-Morrell).
Owner
- Name: Bioconductor
- Login: Bioconductor
- Kind: organization
- Website: https://bioconductor.org
- Repositories: 156
- Profile: https://github.com/Bioconductor
Software for the analysis and comprehension of high-throughput genomic data
GitHub Events
Total
- Member event: 1
Last Year
- Member event: 1
Committers
Last synced: over 2 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| Nitesh Turaga | n****a@g****m | 56 |
| J Wokaty | j****y | 2 |
| J Wokaty | j****y@s****u | 2 |
| Martin Morgan | M****n@R****g | 1 |
| lshep | l****d@r****g | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: over 1 year ago
All Time
- Total issues: 1
- Total pull requests: 2
- Average time to close issues: N/A
- Average time to close pull requests: 3 minutes
- Total issue authors: 1
- Total pull request authors: 1
- Average comments per issue: 1.0
- Average comments per pull request: 0.0
- Merged pull requests: 2
- 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
Top Authors
Issue Authors
- LiNk-NY (1)
Pull Request Authors
- nturaga (2)
Top Labels
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Dependencies
- R >= 4.1 depends
- dplyr * imports
- httr * imports
- memoise * imports
- methods * imports
- readr * imports
- utils * imports
- whisker * imports
- BiocStyle * suggests
- knitr * suggests
- rmarkdown * suggests
- testthat >= 2.1.0 suggests
- bioconductor/bioconductor_docker devel build