Science Score: 26.0%
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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○Academic email domains
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○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (14.4%) to scientific vocabulary
Keywords
Repository
Microbiome Analysis Plotting and Visualization
Basic Info
- Host: GitHub
- Owner: microbiome
- License: artistic-2.0
- Language: R
- Default Branch: devel
- Homepage: https://microbiome.github.io/miaViz
- Size: 1.51 GB
Statistics
- Stars: 11
- Watchers: 9
- Forks: 13
- Open Issues: 17
- Releases: 0
Topics
Metadata Files
README.md
miaViz 
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Microbiome Analysis Plotting and Visualization
The scope of this package is the plotting and visualization of microbiome data.
The main classes for interfacing is the TreeSummarizedExperiment class.
Using the package
Online tutorials and examples are available at:
Contribution
Feel free to contribute by forking and opening a pull request. Please make sure
that required data wrangling should be designed as reusable as possible and
potentially find a better home in the mia
package.
Additionally, please make sure that working examples are included and that
vignetted make use of added functions in either miaViz or the
TreeSummarizedExperiment
package.
Technical aspects
Let's use a git flow kind of approach. Development version should be done
against the master branch and then merged to release for release.
(https://guides.github.com/introduction/flow/)
Installation
Bioc-release
``` if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager")
BiocManager::install("miaViz") ```
Bioc-devel
``` if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager")
The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("miaViz") ```
Code of conduct
Please note that the miaViz project is released with a Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.
Owner
- Name: microbiome
- Login: microbiome
- Kind: organization
- Email: microbiome-admin@googlegroups.com
- Location: Tools for microbiome analytics
- Website: microbiome.github.com
- Repositories: 35
- Profile: https://github.com/microbiome
Microbiome research methods
GitHub Events
Total
- Issues event: 28
- Watch event: 1
- Delete event: 22
- Issue comment event: 85
- Push event: 251
- Pull request review comment event: 25
- Pull request review event: 33
- Pull request event: 53
- Fork event: 1
- Create event: 24
Last Year
- Issues event: 28
- Watch event: 1
- Delete event: 22
- Issue comment event: 85
- Push event: 251
- Pull request review comment event: 25
- Pull request review event: 33
- Pull request event: 53
- Fork event: 1
- Create event: 24
Issues and Pull Requests
Last synced: 6 months ago
All Time
- Total issues: 40
- Total pull requests: 100
- Average time to close issues: 11 months
- Average time to close pull requests: 19 days
- Total issue authors: 8
- Total pull request authors: 9
- Average comments per issue: 3.63
- Average comments per pull request: 2.22
- Merged pull requests: 84
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 15
- Pull requests: 56
- Average time to close issues: 23 days
- Average time to close pull requests: 10 days
- Issue authors: 6
- Pull request authors: 4
- Average comments per issue: 1.87
- Average comments per pull request: 1.36
- Merged pull requests: 48
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- TuomasBorman (15)
- antagomir (15)
- RiboRings (5)
- Daenarys8 (2)
- SHillman836 (1)
- haljuh (1)
- artur-sannikov (1)
- cpauvert (1)
Pull Request Authors
- TuomasBorman (69)
- Daenarys8 (28)
- ake123 (8)
- thpral (7)
- thpralas (6)
- SHillman836 (6)
- Insaynoah (5)
- ElySeraidarian (4)
- antagomir (3)
- RiboRings (3)
- himmil (1)
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 1
-
Total downloads:
- bioconductor 18,044 total
- Total dependent packages: 2
- Total dependent repositories: 0
- Total versions: 5
- Total maintainers: 1
bioconductor.org: miaViz
Microbiome Analysis Plotting and Visualization
- Homepage: https://github.com/microbiome/miaViz
- Documentation: https://bioconductor.org/packages/release/bioc/vignettes/miaViz/inst/doc/miaViz.pdf
- License: Artistic-2.0 | file LICENSE
-
Latest release: 1.16.0
published 10 months ago
Rankings
Maintainers (1)
Dependencies
- R >= 4.0 depends
- SummarizedExperiment * depends
- TreeSummarizedExperiment * depends
- ggplot2 * depends
- ggraph >= 2.0 depends
- mia >= 0.99 depends
- BiocGenerics * imports
- BiocParallel * imports
- DelayedArray * imports
- DirichletMultinomial * imports
- S4Vectors * imports
- ape * imports
- dplyr * imports
- ggnewscale * imports
- ggtree * imports
- methods * imports
- purrr * imports
- rlang * imports
- scater * imports
- stats * imports
- tibble * imports
- tidygraph * imports
- tidyr * imports
- tidytree * imports
- viridis * imports
- BiocStyle * suggests
- knitr * suggests
- microbiomeDataSets * suggests
- patchwork * suggests
- rmarkdown * suggests
- testthat * suggests
- actions/cache v1 composite
- actions/checkout v2 composite
- actions/upload-artifact master composite
- r-lib/actions/setup-pandoc v2 composite
- r-lib/actions/setup-r v2 composite