https://github.com/cumbof/metasbt

A scalable framework for automatically indexing microbial genomes and accurately characterizing metagenome-assembled genomes with Sequence Bloom Trees
https://github.com/cumbof/metasbt

bioinformatics genomes metagenome-assembled-genomes metagenomics microbial-genomics sequence-bloom-trees

Last synced: about 1 month ago
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A scalable framework for automatically indexing microbial genomes and accurately characterizing metagenome-assembled genomes with Sequence Bloom Trees

• Host: GitHub
• URL: https://github.com/cumbof/metasbt
• Owner: cumbof
• License: mit
• Created: 2022-05-04T00:14:32.000Z (about 3 years ago)
• Default Branch: main
• Last Pushed: 2025-04-01T23:23:33.000Z (about 2 months ago)
• Last Synced: 2025-04-13T01:37:34.778Z (about 1 month ago)
• Topics: bioinformatics, genomes, metagenome-assembled-genomes, metagenomics, microbial-genomics, sequence-bloom-trees
• Language: Python
• Homepage:
• Size: 1.12 MB
• Stars: 9
• Watchers: 2
• Forks: 3
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • Changelog: CHANGELOG.md
  • Contributing: CONTRIBUTING.md
  • License: LICENSE
  • Citation: CITATION.cff

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README

        
# MetaSBT

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

Please visit the official [wiki](https://github.com/cumbof/MetaSBT/wiki) to get started playing with MetaSBT.

Also note that we maintain a series of public databases built with our framework over a set of curated microbial genomes. They are all indexed in our [MetaSBT-DBs](https://github.com/cumbof/MetaSBT-DBs) repository.

> [!NOTE]

> Are you interested in using our software and databases, or you want to build your own private database, but you do not have enough computational resources? Get in touch with us, we are always happy to collaborate!

## Credits

Please credit our work in your manuscript by citing:

> _Manuscript in preparation_

## Contributing

Long-term discussion and bug reports are maintained via GitHub [Discussions](https://github.com/cumbof/MetaSBT/discussions) and [Issues](https://github.com/cumbof/MetaSBT/issues), while code review is managed via GitHub [Pull Requests](https://github.com/cumbof/MetaSBT/pulls).

Please, (i) be sure that there are no existing issues/PR concerning the same bug or improvement before opening a new issue/PR; (ii) write a clear and concise description of what the bug/PR is about; (iii) specifying the list of steps to reproduce the behavior in addition to versions and other technical details is highly recommended.

## Support

If you need support, please open an [Issue](https://github.com/cumbof/MetaSBT/issues) or a new [Discussion](https://github.com/cumbof/MetaSBT/discussions). We will be happy to answer your questions and help you troubleshoot any kind of issue concerning our framework.

Copyright © 2024 [Fabio Cumbo](https://github.com/cumbof), [Daniel Blankenberg](https://github.com/blankenberg). See [LICENSE](https://github.com/cumbof/MetaSBT/blob/main/LICENSE) for additional details.