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
Found codemeta.json file -
○.zenodo.json file
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○DOI references
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○Academic publication links
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✓Committers with academic emails
6 of 51 committers (11.8%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (10.6%) to scientific vocabulary
Keywords
hdf5
r
rhdf5
Keywords from Contributors
bioconductor-package
bioconductor
bioinformatics
mirror
pathway-analysis
similarity-measurement
similarity
gene-sets
gene
functional-similarity
Last synced: 9 months ago
·
JSON representation
Repository
Package providing an interface between HDF5 and R
Basic Info
- Host: GitHub
- Owner: Huber-group-EMBL
- Language: R
- Default Branch: devel
- Homepage: https://bioconductor.org/packages/rhdf5/
- Size: 23.5 MB
Statistics
- Stars: 67
- Watchers: 3
- Forks: 21
- Open Issues: 44
- Releases: 0
Topics
hdf5
r
rhdf5
Created almost 9 years ago
· Last pushed 9 months ago
Metadata Files
Readme
Changelog
README.md
rhdf5
This R/Bioconductor package provides an interface between HDF5 and R. HDF5's main features are the ability to store and access very large and/or complex datasets and a wide variety of metadata on mass storage (disk) through a completely portable file format. The rhdf5 package is thus suited for the exchange of large and/or complex datasets between R and other software package, and for letting R applications work on datasets that are larger than the available RAM.
Current Status
| GitHub Actions | Bioconductor Build Sysytem | Test Coverage |
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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 has been provided by the German Network for Bioinformatics Infrastructure & the Chan Zuckerberg Initiative.
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Owner
- Name: EMBL Huber Group
- Login: Huber-group-EMBL
- Kind: organization
- Website: www.huber.embl.de
- Repositories: 4
- Profile: https://github.com/Huber-group-EMBL
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: 7
- Watch event: 4
- Delete event: 1
- Issue comment event: 16
- Push event: 6
- Pull request review event: 1
- Pull request event: 5
- Create event: 1
Last Year
- Issues event: 7
- Watch event: 4
- Delete event: 1
- Issue comment event: 16
- Push event: 6
- Pull request review event: 1
- Pull request event: 5
- Create event: 1
Committers
Last synced: about 1 year ago
Top Committers
| Name | Commits | |
|---|---|---|
| Mike Smith | g****h@g****m | 584 |
| b.fischer | b****r@b****8 | 90 |
| Bernd Fischer | b****r@e****e | 90 |
| Martin Morgan | m****n@r****g | 30 |
| saikat | u****n | 25 |
| Daniel Van Twisk | d****k@r****g | 23 |
| d.tenenbaum | d****m@b****8 | 21 |
| jgentry | j****y@b****8 | 21 |
| Jeff Gentry | j****y@j****u | 21 |
| Dan Tenenbaum | d****a@f****g | 21 |
| rgentlem | r****m@b****8 | 16 |
| Robert Gentleman | r****m@f****g | 16 |
| Nitesh Turaga | n****a@g****m | 14 |
| saikat | s****t@b****8 | 12 |
| J Wokaty | j****y@s****u | 10 |
| Martin Morgan | m****n@f****g | 9 |
| bellis | b****s@b****8 | 9 |
| mtmorgan@fhcrc.org | m****n@f****g@b****8 | 9 |
| LTLA | i****s@g****m | 8 |
| sethf | s****f@b****8 | 8 |
| Seth Falcon | s****n@f****g | 8 |
| Ilia Kats | i****s@g****t | 5 |
| Hervé Pagès | h****s@f****g | 5 |
| whuber | w****r@b****8 | 4 |
| Wolfgang Huber | w****r@d****e | 4 |
| Mike Smith | m****0@c****k | 4 |
| Herve Pages | h****s@f****g | 4 |
| hpages@fhcrc.org | h****s@f****g@b****8 | 4 |
| m.smith | m****h@b****8 | 4 |
| Brad Friedman | f****b@g****m | 3 |
| and 21 more... | ||
Committer Domains (Top 20 + Academic)
fhcrc.org: 11
roswellpark.org: 3
gene.com: 2
upf.edu]: 1
med.umich.edu: 1
cam.ac.uk: 1
dkfz-heidelberg.de: 1
fredhutch.org: 1
gmx.net: 1
sph.cuny.edu: 1
jimmy.harvard.edu: 1
embl.de: 1
Issues and Pull Requests
Last synced: 9 months ago
All Time
- Total issues: 102
- Total pull requests: 46
- Average time to close issues: 4 months
- Average time to close pull requests: 24 days
- Total issue authors: 64
- Total pull request authors: 12
- Average comments per issue: 2.64
- Average comments per pull request: 1.67
- Merged pull requests: 34
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 6
- Pull requests: 6
- Average time to close issues: N/A
- Average time to close pull requests: about 1 hour
- Issue authors: 4
- Pull request authors: 3
- Average comments per issue: 0.0
- Average comments per pull request: 0.0
- Merged pull requests: 3
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- grimbough (20)
- LTLA (11)
- lazappi (4)
- hpages (3)
- mtmorgan (3)
- mschubert (2)
- dipterix (2)
- joaocarr (1)
- glenncampagna (1)
- ekernf01 (1)
- jorainer (1)
- FelixErnst (1)
- dbdimitrov (1)
- poglio (1)
- bharris12 (1)
Pull Request Authors
- grimbough (23)
- LTLA (5)
- ilia-kats (4)
- apomatix (3)
- Bisaloo (2)
- hpages (2)
- dansmith01 (2)
- sanromd (1)
- rcastelo (1)
- jhgronau (1)
- dvantwisk (1)
- lgatto (1)
Top Labels
Issue Labels
enhancement (5)
bug (4)
question (1)
good first issue (1)
Pull Request Labels
Packages
- Total packages: 1
-
Total downloads:
- bioconductor 2,799,557 total
- Total dependent packages: 69
- Total dependent repositories: 0
- Total versions: 9
- Total maintainers: 1
bioconductor.org: rhdf5
R Interface to HDF5
- Homepage: https://github.com/Huber-group-EMBL/rhdf5
- Documentation: https://bioconductor.org/packages/release/bioc/vignettes/rhdf5/inst/doc/rhdf5.pdf
- License: Artistic-2.0
-
Latest release: 2.52.1
published 12 months ago
Rankings
Dependent repos count: 0.0%
Dependent packages count: 1.3%
Downloads: 1.3%
Average: 1.7%
Forks count: 2.2%
Stargazers count: 3.5%
Maintainers (1)
Last synced:
9 months ago
Dependencies
DESCRIPTION
cran
- R >= 4.0.0 depends
- methods * depends
- Rhdf5lib >= 1.13.4 imports
- rhdf5filters * imports
- BiocStyle * suggests
- bit64 * suggests
- dplyr * suggests
- ggplot2 * suggests
- knitr * suggests
- microbenchmark * suggests
- mockery * suggests
- rmarkdown * suggests
- testthat * suggests
.github/workflows/auto-comment.yml
actions
- actions-cool/issues-helper v3 composite
.github/workflows/main.yml
actions
- actions/checkout v1 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 v1 composite
- r-lib/actions/setup-r-dependencies v2 composite
.github/workflows/render-pkgdown.yml
actions
- actions/checkout master composite
- grimbough/bioc-actions/setup-bioc v1 composite
- r-lib/actions/setup-pandoc v2 composite
- r-lib/actions/setup-r-dependencies v2 composite
.github/workflows/amd64.yml
actions
- actions/cache v3 composite
- actions/checkout v3 composite
- actions/upload-artifact v3 composite
- addnab/docker-run-action v3 composite
- docker/login-action v2 composite
- docker/setup-qemu-action v2 composite
inst/scripts/Dockerfile
docker
- python 3.10 build