July 16, 2025Open Access

piqtree: A Python Package for Seamless Phylogenetic Inference with IQ-TREE

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Open-source tool simplifies phylogenetic analysis using IQ-TREE functions in Python, indicating interactive workflow capabilities.

Piqtree integrates IQ-TREE's phylogenetic inference capabilities within a python package for ease of use.
The package enables ultrafast bootstrapping and branch length optimisation for effective phylogenetic analysis.
Users can interact with the tool through platforms like Jupyter notebooks, enhancing data analysis.
Piqtree's interoperability with cogent3 allows seamless integration with other Python libraries and tools.

McArthur et al. (2025) studied this question.

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