https://github.com/cbg-ethz/wisepulse
WISE Loculus with V-Pipe – Infra for start-to-end viral wastewater analysis.
Science Score: 26.0%
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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○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 (6.1%) to scientific vocabulary
Repository
WISE Loculus with V-Pipe – Infra for start-to-end viral wastewater analysis.
Basic Info
Statistics
- Stars: 2
- Watchers: 4
- Forks: 0
- Open Issues: 6
- Releases: 0
Metadata Files
README.md
srSILO
To build the Rust helper scripts, run cargo build --release.
To process a set of .ndjson.zst files, put these in the directory silo_input. Then run make.
This will generate SILO Indexes which can be readily used to run a LAPIS/SILO API.
To start the API you can run LAPIS_PORT=80 docker compose up.
Note that you can replace the LAPIS_PORT with another port that the api should listen on.
A swagger UI to the API can then be accessed at:
http://localhost:80/swagger-ui/index.html
Prerequisites:
- installed cargo
- installed Docker Compose
- platform: Linux (w.r.t. pre-processing scripts invoked by make)
W-ASAP Loculus
Deploy to Kubernetes using Ansible:
bash
cd ansible
echo "your-vault-password" > .vault_pass # Configure vault password
ansible-vault edit secrets/my-values.yaml # Configure your values
ansible-playbook apply-values.yml # Deploy
Owner
- Name: Computational Biology Group (CBG)
- Login: cbg-ethz
- Kind: organization
- Location: Basel, Switzerland
- Website: https://www.bsse.ethz.ch/cbg
- Twitter: cbg_ethz
- Repositories: 91
- Profile: https://github.com/cbg-ethz
Beerenwinkel Lab at ETH Zurich
GitHub Events
Total
- Issues event: 33
- Watch event: 1
- Issue comment event: 65
- Member event: 5
- Push event: 21
- Pull request review comment event: 1
- Pull request review event: 8
- Pull request event: 10
- Create event: 11
Last Year
- Issues event: 33
- Watch event: 1
- Issue comment event: 65
- Member event: 5
- Push event: 21
- Pull request review comment event: 1
- Pull request review event: 8
- Pull request event: 10
- Create event: 11
Issues and Pull Requests
Last synced: 10 months ago
All Time
- Total issues: 21
- Total pull requests: 6
- Average time to close issues: 21 days
- Average time to close pull requests: 22 days
- Total issue authors: 2
- Total pull request authors: 2
- Average comments per issue: 1.48
- Average comments per pull request: 0.67
- Merged pull requests: 3
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 21
- Pull requests: 6
- Average time to close issues: 21 days
- Average time to close pull requests: 22 days
- Issue authors: 2
- Pull request authors: 2
- Average comments per issue: 1.48
- Average comments per pull request: 0.67
- Merged pull requests: 3
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- gordonkoehn (20)
- Taepper (1)
Pull Request Authors
- Taepper (3)
- gordonkoehn (3)