screed
a simple read-only sequence database, designed for short reads
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
3 of 22 committers (13.6%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (5.9%) to scientific vocabulary
Keywords from Contributors
bioinformatics
dna
bloom-filter
genomics
count-min-sketch
graph-traversal
k-mer
taxonomic-classification
taxonomic-profiling
sourmash
Last synced: 10 months ago
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JSON representation
Repository
a simple read-only sequence database, designed for short reads
Basic Info
Statistics
- Stars: 66
- Watchers: 24
- Forks: 32
- Open Issues: 10
- Releases: 8
Created about 14 years ago
· Last pushed over 2 years ago
Metadata Files
Readme
Changelog
Contributing
Code of conduct
README.md
screed -- short read sequence utils in Python.
The official repository for screed is:
https://github.com/dib-lab/screed
See http://readthedocs.org/docs/screed/en/latest/ for docs.
Issues are tracked at https://github.com/dib-lab/khmer/issues.
Owner
- Name: The Lab for Data Intensive Biology
- Login: dib-lab
- Kind: organization
- Location: University of California, Davis, School of Veterinary Medicine, Davis, California, USA
- Website: http://ivory.idyll.org/lab/
- Repositories: 104
- Profile: https://github.com/dib-lab
Previously "Genomics, Evolution, and Development Lab" @ Michigan State University
GitHub Events
Total
- Watch event: 3
Last Year
- Watch event: 3
Committers
Last synced: over 2 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| Alex Nolley | a****x@t****) | 98 |
| Jake Fenton | b****f@g****m | 83 |
| C. Titus Brown | t****s@i****g | 74 |
| Luiz Irber | l****r@g****m | 66 |
| Michael R. Crusoe | m****e@m****u | 32 |
| Alex Nolley | b****t@g****m | 26 |
| Daniel Standage | d****e@g****m | 26 |
| Michael R. Crusoe | m****e@g****m | 25 |
| Alex Nolley | a****x@e****e | 10 |
| gpratt | g****t@g****m | 6 |
| Benjamin Taylor | t****6@m****u | 4 |
| dependabot[bot] | 4****] | 3 |
| Alex Nolley | a****x@t****a | 3 |
| Michael Wright | w****7@g****m | 2 |
| proteasome | e****e@b****u | 2 |
| Sarah Guermond | s****d@g****m | 2 |
| Kevin Murray | s****m@k****u | 2 |
| Thomas Fenzl | t****l@g****t | 2 |
| peterjc | p****k@g****m | 2 |
| Luiz Irber | l****r | 2 |
| Alex Nolley | n****l@l****g | 1 |
| Michael R. Crusoe | 1****c | 1 |
Committer Domains (Top 20 + Academic)
msu.edu: 2
lyorn.idyll.org: 1
gmx.net: 1
kdmurray.id.au: 1
bu.edu: 1
evernight.home: 1
idyll.org: 1
ticenia.(none): 1
Issues and Pull Requests
Last synced: 11 months ago
All Time
- Total issues: 11
- Total pull requests: 96
- Average time to close issues: 2 months
- Average time to close pull requests: about 2 months
- Total issue authors: 3
- Total pull request authors: 17
- Average comments per issue: 0.36
- Average comments per pull request: 4.14
- Merged pull requests: 87
- Bot issues: 0
- Bot pull requests: 7
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
- ctb (6)
- luizirber (3)
- johnsolk (2)
Pull Request Authors
- ctb (23)
- luizirber (21)
- mr-c (15)
- bocajnotnef (10)
- dependabot[bot] (9)
- standage (6)
- lgautier (2)
- anotherthomas (2)
- gpratt (1)
- themangoemoji (1)
- kdm9 (1)
- mandel01 (1)
- brtaylor92 (1)
- gitter-badger (1)
- sguermond (1)
Top Labels
Issue Labels
Pull Request Labels
dependencies (9)
github_actions (9)
wontfix (2)
Packages
- Total packages: 2
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Total downloads:
- pypi 6,672 last-month
- Total docker downloads: 72
-
Total dependent packages: 7
(may contain duplicates) -
Total dependent repositories: 39
(may contain duplicates) - Total versions: 16
- Total maintainers: 3
pypi.org: screed
a Python library for loading FASTA and FASTQ sequences
- Homepage: https://github.com/dib-lab/screed
- Documentation: https://screed.readthedocs.io
- License: BSD 3-clause
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Latest release: 1.1.3
published over 2 years ago
Rankings
Docker downloads count: 1.2%
Dependent packages count: 1.9%
Dependent repos count: 2.6%
Average: 4.4%
Downloads: 4.8%
Forks count: 6.8%
Stargazers count: 8.8%
Maintainers (3)
Last synced:
11 months ago
conda-forge.org: screed
- Homepage: http://github.com/dib-lab/screed/
- License: BSD-3-Clause
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Latest release: 1.0.5
published over 5 years ago
Rankings
Dependent repos count: 12.2%
Average: 27.6%
Dependent packages count: 29.0%
Forks count: 30.3%
Stargazers count: 38.8%
Last synced:
11 months ago
Dependencies
.github/workflows/python.yml
actions
- actions/cache v3 composite
- actions/checkout v3 composite
- actions/setup-python v4 composite