cryptic-sequence-concept
Exploratory work on measures for epistatic and marginal sequence complexity.
Science Score: 67.0%
This score indicates how likely this project is to be science-related based on various indicators:
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✓CITATION.cff file
Found CITATION.cff file -
✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
✓DOI references
Found 13 DOI reference(s) in README -
✓Academic publication links
Links to: zenodo.org -
○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 (7.0%) to scientific vocabulary
Repository
Exploratory work on measures for epistatic and marginal sequence complexity.
Basic Info
- Host: GitHub
- Owner: mmore500
- Language: Python
- Default Branch: master
- Homepage: http://knockem.online
- Size: 12.6 MB
Statistics
- Stars: 0
- Watchers: 1
- Forks: 0
- Open Issues: 5
- Releases: 5
Metadata Files
README.md
Cryptic Sequence Complexity Concept
Exploratory work on measures for epistatic and marginal sequence complexity.
- Free software: MIT license
Installation
python3 -m pip install "git+https://github.com/mmore500/cryptic-sequence-concept.git#egg=knockem"
Citing
If cryptic-sequence contributes to a scientific publication, please cite it as
Matthew Andres Moreno. (2024). mmore500/cryptic-sequence-concept. Zenodo. https://doi.org/10.5281/zenodo.11401734
bibtex
@software{moreno2024cryptic,
author = {Matthew Andres Moreno},
title = {mmore500/cryptic-sequence-concept},
month = may,
year = 2024,
publisher = {Zenodo},
doi = {10.5281/zenodo.11401734},
url = {https://doi.org/10.5281/zenodo.11401734}
}
Consider also citing underlying statistical methodology,
Moreno, M. A. (2024). Methods to Estimate Cryptic Sequence Complexity. arXiv preprint arXiv:2404.10854. https://doi.org/10.48550/arXiv.2404.10854
bibtex
@misc{moreno2024methods,
title={Methods to Estimate Cryptic Sequence Complexity},
author={Matthew Andres Moreno},
year={2024},
eprint={2404.10854},
archivePrefix={arXiv},
primaryClass={q-bio.PE},
doi={10.48550/arXiv.2404.10854},
url={https://doi.org/10.48550/arXiv.2404.10854},
}
Owner
- Name: Matthew Andres Moreno
- Login: mmore500
- Kind: user
- Location: East Lansing, MI
- Company: @devosoft
- Website: mmore500.github.io
- Twitter: MorenoMathewA
- Repositories: 43
- Profile: https://github.com/mmore500
doctoral student, Computer Science and Engineering at Michigan State University
Citation (CITATION.cff)
cff-version: 1.1.0 message: "If you use this software, please cite it as below." title: 'cryptic-sequence-concept: tools to quantify epistatic and small-effect additive sites via knockout' authors: - family-names: Moreno given-names: Matthew Andres orcid: 0000-0003-4726-4479 date-released: 2024-05-31 doi: 10.5281/zenodo.11401734 license: MIT repository-code: https://github.com/mmore500/cryptic-sequence-concept url: "https://github.com/mmore500/cryptic-sequence-concept"
GitHub Events
Total
- Push event: 8
Last Year
- Push event: 8
Issues and Pull Requests
Last synced: over 1 year ago
All Time
- Total issues: 9
- Total pull requests: 3
- Average time to close issues: 4 days
- Average time to close pull requests: 1 day
- Total issue authors: 1
- Total pull request authors: 1
- Average comments per issue: 0.0
- Average comments per pull request: 0.67
- Merged pull requests: 3
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 4
- Pull requests: 0
- Average time to close issues: 5 days
- Average time to close pull requests: N/A
- Issue authors: 1
- Pull request authors: 0
- Average comments per issue: 0.0
- Average comments per pull request: 0
- Merged pull requests: 0
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- mmore500 (8)
Pull Request Authors
- mmore500 (6)
Top Labels
Issue Labels
Pull Request Labels
Dependencies
- JamesIves/github-pages-deploy-action 4.0.0 composite
- actions/checkout v2 composite
- actions/setup-node v3 composite
- actions/upload-artifact v2 composite
- docker/build-push-action v1 composite
- fregante/setup-git-user v1 composite
- mmore500/dishtiny sha-7f3f5c8 build
- mmore500/docker-texlive-full sha-ea45eb5 build
- 119 dependencies
- breathe ==4.19.2
- coverxygen ==1.5.0
- exhale ==0.2.3
- myst-parser ==0.12.9
- sphinx ==3.1.2
- sphinx-rtd-theme ==0.5.0
- sphinxemoji ==0.1.8
- Deprecated ==1.2.13
- IPython ==7.31.1
- Jinja2 <3.1
- UniformSumDistribution ==1.0.3
- black ==22.10.0
- hstrat ==1.7.4
- interval_search ==0.5.2
- isort ==5.12.0
- iterpop ==0.4.1
- matplotlib ==3.6.2
- nb-clean ==2.4.0
- nbconvert ==7.6.0
- nbmetalog ==0.2.6
- numpy ==1.23.5
- opytional ==0.1.0
- outset ==0.1.8
- pandas ==1.5.2
- pytest ==7.2.2
- pytest-xdist ==3.2.1
- ruff ==0.0.260
- scipy ==1.10.1
- seaborn ==0.12.1
- teeplot ==0.5.0
- tqdm ==4.64.1
- 119 dependencies
- python 3.10-slim build
- python 3.10-slim build
- UniformSumDistribution *
- connexion [uvicorn,swagger-ui]
- dataset *
- hstrat *
- interval_search *
- iterpop *
- numpy *
- opytional *
- pandas *
- paramiko *
- pymongo *
- schedule *
- scipy *
- UniformSumDistribution *
- connexion [uvicorn,swagger-ui]
- dataset *
- hstrat *
- interval_search *
- iterpop *
- numpy *
- opytional *
- pandas *
- paramiko *
- pymongo *
- schedule *
- scipy *