aquascope
Science Score: 13.0%
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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○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 (9.8%) to scientific vocabulary
Repository
Basic Info
- Host: GitHub
- Owner: CDCgov
- License: mit
- Language: Nextflow
- Default Branch: main
- Homepage: https://cdcgov.github.io/aquascope/
- Size: 640 MB
Statistics
- Stars: 20
- Watchers: 10
- Forks: 15
- Open Issues: 6
- Releases: 9
Metadata Files
README.md
Aquascope
This project is a successor to the C-WAP pipeline and is intended to process SARS-CoV-2 wastewater samples to determine relative variant abundance.
Warning
The results generated by this pipeline are not CLIA certified and should be used for research purposes only.
Introduction
CDCgov/aquascope is a bioinformatics best-practice pipeline for early detection of SARS-COV variants of concern, sequenced throughshotgun metagenomic sequencing, from wastewater.
The pipeline is built using Nextflow, a workflow tool to run tasks across multiple compute infrastructures in a very portable manner. It uses Docker/Singularity containers making installation easy and results highly reproducible.
Documentation
Please visit our user-guides.
Contributions and Support
Aquascope was developed in collaboration by OAMD's SciComp Team, the National Wastewater Surveillance System (NWSS), and the DCIPHER Team at Palantir.
If you would like to contribute to this pipeline, please see the contributing guidelines.
Citations
An extensive list of references for the tools used by the pipeline can be found in the CITATIONS.md file.
Owner
- Name: Centers for Disease Control and Prevention
- Login: CDCgov
- Kind: organization
- Email: data@cdc.gov
- Location: Atlanta, GA
- Website: http://open.cdc.gov/
- Twitter: CDCgov
- Repositories: 114
- Profile: https://github.com/CDCgov
CDC's collaborative software projects to protect America from health, safety, and security threats, both foreign and in the U.S.
GitHub Events
Total
- Create event: 13
- Release event: 2
- Issues event: 41
- Watch event: 4
- Delete event: 9
- Member event: 1
- Issue comment event: 32
- Push event: 58
- Pull request review comment event: 2
- Pull request review event: 7
- Pull request event: 19
- Fork event: 5
Last Year
- Create event: 13
- Release event: 2
- Issues event: 41
- Watch event: 4
- Delete event: 9
- Member event: 1
- Issue comment event: 32
- Push event: 58
- Pull request review comment event: 2
- Pull request review event: 7
- Pull request event: 19
- Fork event: 5
Issues and Pull Requests
Last synced: 10 months ago
All Time
- Total issues: 45
- Total pull requests: 40
- Average time to close issues: 2 months
- Average time to close pull requests: 4 days
- Total issue authors: 14
- Total pull request authors: 8
- Average comments per issue: 0.84
- Average comments per pull request: 0.25
- Merged pull requests: 34
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 21
- Pull requests: 15
- Average time to close issues: 15 days
- Average time to close pull requests: 2 days
- Issue authors: 8
- Pull request authors: 4
- Average comments per issue: 1.0
- Average comments per pull request: 0.4
- Merged pull requests: 14
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- slsevilla (20)
- jessebyoder (7)
- arunbodd (7)
- amahale6 (2)
- adhroso (2)
- lorentz-ben (1)
- DrB-S (1)
- mish-su (1)
- Goraichuk (1)
- jacaravas (1)
- garfinjm (1)
- vijayamsangeetha (1)
- srnarum (1)
- SeanSierra-Patev (1)
Pull Request Authors
- slsevilla (24)
- arunbodd (22)
- antongray1 (5)
- SuchiC23 (4)
- hseabolt (2)
- EthanHolleman (1)
- SMorrison42 (1)
- jacaravas (1)