DESeq2
Differential expression of RNA-seq data using the Negative Binomial
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 links in README
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✓Committers with academic emails
4 of 27 committers (14.8%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (0.5%) to scientific vocabulary
Keywords from Contributors
bioconductor-package
genomics
transcriptomics
bioinformatics
bioconductor
gene
core-package
u24ca289073
mass-spectrometry
proteomics
Last synced: 10 months ago
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JSON representation
Repository
Differential expression of RNA-seq data using the Negative Binomial
Basic Info
- Host: GitHub
- Owner: thelovelab
- Language: R
- Default Branch: devel
- Homepage: https://bioconductor.org/packages/DESeq2
- Size: 3.62 MB
Statistics
- Stars: 411
- Watchers: 23
- Forks: 98
- Open Issues: 2
- Releases: 0
Created over 8 years ago
· Last pushed 11 months ago
Metadata Files
Changelog
Code of conduct
Owner
- Name: The Love Lab
- Login: thelovelab
- Kind: organization
- Email: michaelisaiahlove [at] gmail
- Location: United States of America
- Website: https://mikelove.github.io
- Twitter: mikelove
- Repositories: 1
- Profile: https://github.com/thelovelab
Software produced by members of the Love Lab (UNC-Chapel Hill)
GitHub Events
Total
- Commit comment event: 1
- Issues event: 17
- Watch event: 50
- Issue comment event: 27
- Push event: 9
- Fork event: 7
Last Year
- Commit comment event: 1
- Issues event: 17
- Watch event: 50
- Issue comment event: 27
- Push event: 9
- Fork event: 7
Committers
Last synced: 10 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| mikelove | m****e@g****m | 755 |
| const-ae | a****5@g****m | 30 |
| Mike Love | m****e@u****m | 19 |
| Herve Pages | h****s@f****g | 18 |
| Dan Tenenbaum | d****a@f****g | 17 |
| Wolfgang Huber | w****r@d****e | 17 |
| Nitesh Turaga | n****a@g****m | 14 |
| J Wokaty | j****y@s****u | 6 |
| Hervé Pagès | h****s@f****g | 4 |
| J Wokaty | j****y@u****m | 4 |
| A Wokaty | a****y@s****u | 2 |
| Federico Marini | m****f@u****e | 2 |
| Quam Forbes | 5****s@u****m | 2 |
| vobencha | v****n@r****g | 2 |
| vobencha | v****a@g****m | 2 |
| Andrzej Oleś | a****s@g****m | 1 |
| Charlotte Soneson | c****n@g****m | 1 |
| Frank | f****g@i****m | 1 |
| Hugo Tavares | t****o@u****m | 1 |
| I-Hsuan Lin | 9****6@u****m | 1 |
| Luca Menestrina | 5****a@u****m | 1 |
| Marc Carlson | m****n@f****g | 1 |
| Reyes Quiroz, Alejandro | a****z@n****m | 1 |
| Rory Nolan | r****n@g****m | 1 |
| Simon Anders | a****s@e****k | 1 |
| Sonali Arora | s****a@f****g | 1 |
| hendrikweisser | h****r@u****m | 1 |
Committer Domains (Top 20 + Academic)
fhcrc.org: 4
sph.cuny.edu: 2
ebi.ac.uk: 1
novartis.com: 1
illumina.com: 1
roswellpark.org: 1
uni-mainz.de: 1
fredhutch.org: 1
dkfz-heidelberg.de: 1
Issues and Pull Requests
Last synced: 10 months ago
All Time
- Total issues: 92
- Total pull requests: 25
- Average time to close issues: 12 days
- Average time to close pull requests: 3 days
- Total issue authors: 75
- Total pull request authors: 16
- Average comments per issue: 2.49
- Average comments per pull request: 2.28
- Merged pull requests: 21
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 13
- Pull requests: 0
- Average time to close issues: 13 days
- Average time to close pull requests: N/A
- Issue authors: 12
- Pull request authors: 0
- Average comments per issue: 2.46
- Average comments per pull request: 0
- Merged pull requests: 0
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- frederikziebell (8)
- mikelove (6)
- Shicheng-Guo (2)
- mathavanpu (2)
- gouwei1 (2)
- vinadiscar (2)
- mschubert (2)
- vjcitn (1)
- roryk (1)
- vivekbhr (1)
- hchoiHiLung (1)
- JCSzamosi (1)
- liuyang2006 (1)
- gennadyFauna (1)
- z5ouyang (1)
Pull Request Authors
- const-ae (7)
- federicomarini (2)
- KwameForbes (2)
- ycl6 (2)
- rorynolan (1)
- luciorq (1)
- nalcala (1)
- areyesq89 (1)
- LucaMenestrina (1)
- biomystery (1)
- tavareshugo (1)
- hendrikweisser (1)
- mikelove (1)
- csoneson (1)
- agdenadel (1)
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 1
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Total downloads:
- bioconductor 3,506,515 total
- Total dependent packages: 146
- Total dependent repositories: 0
- Total versions: 8
- Total maintainers: 1
bioconductor.org: DESeq2
Differential gene expression analysis based on the negative binomial distribution
- Homepage: https://github.com/thelovelab/DESeq2
- Documentation: https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.pdf
- License: LGPL (>= 3)
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Latest release: 1.48.2
published 10 months ago
Rankings
Dependent repos count: 0.0%
Stargazers count: 0.2%
Forks count: 0.2%
Average: 0.5%
Dependent packages count: 0.7%
Downloads: 1.1%
Maintainers (1)
Last synced:
10 months ago
Dependencies
DESCRIPTION
cran
- GenomicRanges * depends
- IRanges * depends
- S4Vectors >= 0.23.18 depends
- SummarizedExperiment >= 1.1.6 depends
- Biobase * imports
- BiocGenerics >= 0.7.5 imports
- BiocParallel * imports
- Rcpp >= 0.11.0 imports
- genefilter * imports
- geneplotter * imports
- ggplot2 * imports
- locfit * imports
- methods * imports
- stats4 * imports
- BiocManager * suggests
- RColorBrewer * suggests
- airway * suggests
- apeglm * suggests
- ashr * suggests
- glmGamPoi * suggests
- knitr * suggests
- pasilla >= 0.2.10 suggests
- pbapply * suggests
- pheatmap * suggests
- readr * suggests
- rmarkdown * suggests
- testthat * suggests
- tximeta * suggests
- tximport * suggests
- tximportData * suggests
- vsn * suggests