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Open Source Science

https://github.com/cumbof/metasbt-dbs

MetaSBT public databases

https://github.com/cumbof/metasbt-dbs

Science Score: 26.0%

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    CITATION.cff file
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    Found codemeta.json file
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    Scientific vocabulary similarity
    Low similarity (13.0%) to scientific vocabulary

Keywords

databases metagenome-assembled-genomes metagenomics reference-genomes sequence-bloom-trees
Last synced: 5 months ago · JSON representation

Repository

MetaSBT public databases

Basic Info
  • Host: GitHub
  • Owner: cumbof
  • License: mit
  • Default Branch: main
  • Homepage:
  • Size: 7.94 MB
Statistics
  • Stars: 1
  • Watchers: 1
  • Forks: 0
  • Open Issues: 0
  • Releases: 0
Topics
databases metagenome-assembled-genomes metagenomics reference-genomes sequence-bloom-trees
Created almost 3 years ago · Last pushed 8 months ago
Metadata Files
Readme License

README.md

MetaSBT Public Databases

📦 A collection of public MetaSBT databases featuring taxonomically organized Sequence Bloom Trees (SBTs) built from curated sets of microbial genomes.

🧬 About the Databases

These databases are generated using the MetaSBT framework.

Each MetaSBT database is a compressed tarball containing Bloom filter representations of microbial genomes, hierarchically organized into SBTs based on their taxonomic information.

To simplify their distribution and installation, MetaSBT provides automated utilities.

📦 pack: package a database

📂 unpack: install a packaged database

👉 For detailed usage instructions, and to retrieve the latest list of available public databases, refer to the MetaSBT documentation.

[!NOTE] Want to use our software and databases, or build a private MetaSBT database but don’t have the necessary compute resources? Reach out! We’re always happy to collaborate.

🤝 Contributing

Long-term discussion and bug reports are maintained via GitHub Discussions and Issues under the MetaSBT framework repository, while code review is managed via GitHub Pull Requests.

Before contributing, please: 1. Check for existing issues or PRs related to your topic; 2. Write clear and concise titles and descriptions; 3. Include steps to reproduce bugs, relevant logs, version info, and other technical details when appropriate.

🛠️ Support

Need help?

Open an Issue or start a Discussion under the MetaSBT framework repository — we're happy to assist with any questions or technical problems.

Copyright © 2025 Fabio Cumbo, Daniel Blankenberg. See LICENSE for additional details.

Owner

  • Name: Fabio Cumbo
  • Login: cumbof
  • Kind: user
  • Location: Cleveland, OH, USA
  • Company: Genomic Medicine Institute, Lerner Research Institute, Cleveland Clinic

Ph.D. in Computer Science and Automation Engineering, Postdoctoral Research Fellow @BlankenbergLab, GMI, LRI, Cleveland Clinic, USA

GitHub Events

Total
  • Watch event: 1
  • Push event: 12
Last Year
  • Watch event: 1
  • Push event: 12

Committers

Last synced: about 1 year ago

All Time
  • Total Commits: 34
  • Total Committers: 1
  • Avg Commits per committer: 34.0
  • Development Distribution Score (DDS): 0.0
Past Year
  • Commits: 12
  • Committers: 1
  • Avg Commits per committer: 12.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Fabio Cumbo f****o@g****m 34

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 0
  • Total pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Total issue authors: 0
  • Total 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
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
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Packages

  • Total packages: 1
  • Total downloads:
    • pypi 122 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 7
  • Total maintainers: 1
pypi.org: metasbt

A scalable framework for automatically indexing microbial genomes and accurately characterizing metagenome-assembled genomes with Sequence Bloom Trees

  • Versions: 7
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 122 Last month
Rankings
Dependent packages count: 6.6%
Forks count: 17.3%
Average: 29.5%
Dependent repos count: 30.6%
Stargazers count: 39.1%
Downloads: 53.9%
Maintainers (1)
fabiocumbo
Last synced: 6 months ago