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October 2, 2025Open Access

phylo2vec: a library for vector-based phylogenetic tree manipulation

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Authors

NSNeil ScheidwasserANAlo NagMPMatthew Penn

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Overview

Software enables efficient phylogenetic tree handling with applications in bioinformatics and machine learning.

Key Points

  • The phylo2vec library supports efficient manipulation and analysis of binary phylogenetic trees, enhancing tree data processing.
  • Incorporating an integer vector representation allows greater memory efficiency and adaptability for machine learning tasks.
  • Developed in Rust, phylo2vec significantly improves performance compared to traditional formats like Newick, with versions available in Python and R.
  • The tool addresses the growing need for adaptive phylogenetic software in the wake of large-scale genomic datasets, especially during the SARS-CoV-2 pandemic.

Cite This Study

Scheidwasser et al. (2025) studied this question.

synapsesocial.com/papers/68de84bf5b556a9128e1becehttps://doi.org/10.48550/arxiv.2506.19490
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Also Consider

Synapse has enriched 5 closely related papers on similar clinical questions. Consider them for comparative context:

  1. 1Phylo2Vec: a vector representation for binary trees2024 · 7 citations
  2. 2A Vector Representation for Phylogenetic Trees2024
  3. 3phyloDB: A framework for large-scale phylogenetic analysis of sequence based typing data2024 · 2 citations
  4. 4CompactTree: A lightweight header-only C++ library for ultra-large phylogenetics2024 · 1 citations
  5. 5Vector Encoding of Phylogenetic Trees by Ordered Leaf Attachment2026