BiocParallel
Bioconductor facilities for parallel evaluation
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
5 of 29 committers (17.2%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (3.3%) to scientific vocabulary
Keywords
bioconductor-package
core-package
u24ca289073
Keywords from Contributors
bioconductor
bioinformatics
core-services
mass-spectrometry
genomics
hdf5
rhdf5
image-analysis
feature-detection
peak-detection
Last synced: 6 months ago
·
JSON representation
Repository
Bioconductor facilities for parallel evaluation
Basic Info
- Host: GitHub
- Owner: Bioconductor
- License: other
- Language: R
- Default Branch: devel
- Homepage: https://bioconductor.org/packages/BiocParallel
- Size: 1.27 MB
Statistics
- Stars: 68
- Watchers: 17
- Forks: 31
- Open Issues: 30
- Releases: 0
Topics
bioconductor-package
core-package
u24ca289073
Created over 13 years ago
· Last pushed 7 months ago
Metadata Files
Readme
Changelog
License
README.md
BiocParallel
Bioconductor facilities for parallel evaluation (experimental)
Possible TODO
- map/reduce-like function
- bpforeach?
- Abstract scheduler
- lazy DoparParam
- SnowParam support for setSeed, recursive, cleanup
- subset SnowParam
DONE
- encapsulate arguments as ParallelParam()
- Standardize signatures
- Make functions generics
- parLapply-like function
- Short vignette
- elaborate SnowParam for SnowSocketParam, SnowForkParam, SnowMpiParam, ...
- MulticoreParam on Windows
github notes
commit one-liners with names
git log --pretty=format:"- %h %an: %s"
TO FIX
- DoparParam does not pass foreach args (specifically access to .options.nws for chunking)
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
- Issues event: 17
- Delete event: 11
- Issue comment event: 29
- Member event: 1
- Push event: 20
- Pull request review event: 1
- Pull request event: 11
- Fork event: 2
- Create event: 6
Last Year
- Issues event: 17
- Delete event: 11
- Issue comment event: 29
- Member event: 1
- Push event: 20
- Pull request review event: 1
- Pull request event: 11
- Fork event: 2
- Create event: 6
Committers
Last synced: 9 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| Martin Morgan | M****n@R****g | 246 |
| Valerie Obenchain | v****a@f****g | 132 |
| Martin Morgan | m****n@f****g | 127 |
| Nitesh Turaga | n****a@g****m | 72 |
| Jiefei-Wang | s****8@g****m | 46 |
| Dan Tenenbaum | d****a@f****g | 18 |
| Phyllis Atieno | a****2@g****m | 11 |
| J Wokaty | j****y@s****u | 10 |
| Hervé Pagès | h****s@f****g | 7 |
| Sergio Oller | s****r@g****m | 4 |
| Daniel Van Twisk | d****k@r****g | 4 |
| Herve Pages | h****s@f****g | 4 |
| Peter Hickey | p****y@g****m | 3 |
| phyleria | a****m | 3 |
| Mike Smith | g****h@g****m | 2 |
| vobencha | v****a@g****m | 2 |
| Madelyn Carlson | m****8@g****m | 2 |
| Henrik Bengtsson | hb@a****g | 2 |
| Graham Inggs | g****s@d****g | 2 |
| vobencha | v****n@r****g | 2 |
| A Wokaty | a****y@s****u | 2 |
| Aaron Lun | a****n@w****u | 2 |
| Vince Carey | s****c@c****u | 1 |
| Tom Callaway | s****t@f****g | 1 |
| Nitesh Turaga | n****a@u****) | 1 |
| LiNk-NY | m****z@r****g | 1 |
| LTLA | i****s@g****m | 1 |
| Dario Strbenac | d****c@s****u | 1 |
| Charlotte Soneson | c****n@g****m | 1 |
Committer Domains (Top 20 + Academic)
fhcrc.org: 4
roswellpark.org: 4
sph.cuny.edu: 2
sydney.edu.au: 1
u1.(none): 1
fedoraproject.org: 1
channing.harvard.edu: 1
wehi.edu.au: 1
debian.org: 1
aroma-project.org: 1
fredhutch.org: 1
Issues and Pull Requests
Last synced: 6 months ago
All Time
- Total issues: 62
- Total pull requests: 68
- Average time to close issues: about 1 month
- Average time to close pull requests: 2 months
- Total issue authors: 45
- Total pull request authors: 11
- Average comments per issue: 3.47
- Average comments per pull request: 1.65
- Merged pull requests: 27
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 15
- Pull requests: 10
- Average time to close issues: about 2 months
- Average time to close pull requests: 29 days
- Issue authors: 14
- Pull request authors: 3
- Average comments per issue: 1.73
- Average comments per pull request: 0.6
- Merged pull requests: 4
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- mtmorgan (10)
- HenrikBengtsson (6)
- Jiefei-Wang (3)
- vjcitn (2)
- zeehio (1)
- z5ouyang (1)
- kanji709 (1)
- Fred-White94 (1)
- adam-cornwell (1)
- alopehba (1)
- jorainer (1)
- shubham1637 (1)
- gbdias (1)
- TPlatek (1)
- DarwinAwardWinner (1)
Pull Request Authors
- Jiefei-Wang (43)
- mtmorgan (6)
- villafup (4)
- LiNk-NY (4)
- zeehio (3)
- DarioS (1)
- phyleria (1)
- dvantwisk (1)
- mcarlsn (1)
- nturaga (1)
- csoneson (1)
Top Labels
Issue Labels
Pull Request Labels
enhancement (1)
Packages
- Total packages: 1
-
Total downloads:
- bioconductor 7,419,725 total
- Total dependent packages: 377
- Total dependent repositories: 0
- Total versions: 8
- Total maintainers: 1
bioconductor.org: BiocParallel
Bioconductor facilities for parallel evaluation
- Homepage: https://github.com/Bioconductor/BiocParallel
- Documentation: https://bioconductor.org/packages/release/bioc/vignettes/BiocParallel/inst/doc/BiocParallel.pdf
- License: GPL-2 | GPL-3 | BSL-1.0
-
Latest release: 1.42.1
published 9 months ago
Rankings
Dependent repos count: 0.0%
Dependent packages count: 0.3%
Downloads: 0.5%
Average: 1.1%
Forks count: 1.6%
Stargazers count: 3.2%
Maintainers (1)
Last synced:
6 months ago
Dependencies
DESCRIPTION
cran
- R >= 3.5.0 depends
- methods * depends
- codetools * imports
- futile.logger * imports
- parallel * imports
- snow * imports
- stats * imports
- utils * imports
- BBmisc * suggests
- BatchJobs * suggests
- BiocGenerics * suggests
- BiocStyle * suggests
- GenomicAlignments * suggests
- GenomicRanges * suggests
- RNAseqData.HNRNPC.bam.chr14 * suggests
- RUnit * suggests
- Rmpi * suggests
- Rsamtools * suggests
- ShortRead * suggests
- TxDb.Hsapiens.UCSC.hg19.knownGene * suggests
- VariantAnnotation * suggests
- batchtools * suggests
- data.table * suggests
- doParallel * suggests
- foreach * suggests
- knitr * suggests
- tools * suggests