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Published June 18, 2024 | Version 0.6.1
Software Open

scikit-bio/scikit-bio: scikit-bio 0.6.1

Authors/Creators

  • 1. @onecodex
  • 2. @qiime2
  • 3. UCSD - Dept. of Pediatrics
  • 4. @BiomeSense
  • 5. University of California, San Diego
  • 6. UCSD
  • 7. Arizona State University
  • 8. Invitae, Inc.
  • 9. Princeton University
  • 10. San Diego Supercomputing Center
  • 11. Max Planck Institut für Entwicklungsbiologie, Tübingen

Description

We are excited to announce scikit-bio 0.6.1!

Release highlights:

  • Added module skbio.embedding to provide support for storing and manipulating embeddings for biological objects, such as protein embeddings outputted from protein language models (pLMs).
  • Added an efficient sequence alignment path data structure AlignPath to provide a uniform interface for various multiple and pairwise alignment formats.
  • Boosted the performance of count subsampling, an essential algorithm for omic data analysis.
  • Improved alpha diversity calculation, including new metrics and variants, enriched documentation and literature citations, and edge case treatment.
  • Enabled support for NumPy 2.0.

Review the changelog for a complete list of the changes. Browse the documentation to learn about what you can do with scikit-bio. Follow @scikitbio for project updates. Thanks for your interest in scikit-bio!

Files

scikit-bio/scikit-bio-0.6.1.zip

Files (2.5 MB)

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Additional details

Related works

Is supplement to
Software: https://github.com/scikit-bio/scikit-bio/tree/0.6.1 (URL)