https://github.com/cbg-ethz/sars-cov-2_analysis
A Snakemake workflow for large-scale SARS-CoV-2 analyses.
Science Score: 10.0%
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
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○.zenodo.json file
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○DOI references
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○Academic publication links
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✓Committers with academic emails
1 of 4 committers (25.0%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (5.7%) to scientific vocabulary
Keywords
Repository
A Snakemake workflow for large-scale SARS-CoV-2 analyses.
Basic Info
Statistics
- Stars: 3
- Watchers: 4
- Forks: 3
- Open Issues: 0
- Releases: 0
Topics
Metadata Files
README.md
SARS-CoV-2_Analysis
A Snakemake workflow for large-scale SARS-CoV-2 analyses.
Usage
First, clone the repository:
bash
git clone https://github.com/cbg-ethz/SARS-CoV-2_Analysis
If needed, search for new samples using QuerySRAAccessions.ipynb.
The whole analysis can then be reproduced by executing the following line:
bash
./run_pipeline.sh
This will download the reads, compute coverages, call variants, and plot summary figures.
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
Last Year
Committers
Last synced: about 1 year ago
Top Committers
| Name | Commits | |
|---|---|---|
| kpj | k****i@g****m | 162 |
| Nico B | 2****r | 3 |
| jahnka | k****n@b****h | 2 |
| Jack Kuipers | 3****s | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: about 1 year ago
All Time
- Total issues: 0
- Total pull requests: 4
- Average time to close issues: N/A
- Average time to close pull requests: 4 days
- Total issue authors: 0
- Total pull request authors: 2
- Average comments per issue: 0
- Average comments per pull request: 0.25
- Merged pull requests: 4
- Bot issues: 0
- Bot pull requests: 0
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
Pull Request Authors
- NBMueller (3)
- jackkuipers (1)