Accurate and Efficient Phylogenetic Inference through End-To-End Deep Learning.

ABSTRACT: Accurate phylogenetic inference is crucial for understanding evolutionary relationships among species. Deep learning technique has been introduced for phylogenetic inference; however, the existing deep learning-based approaches either suffer from limited accuracy as they split inference into several disjoint stages, or exhibit low efficiency and hardly apply to the cases with over 20 species. Here, we present an accurate and efficient approach to phylogenetic inference. Our approach, called NeuralNJ, employs an end-to-end framework that directly constructs phylogenetic trees from the input taxa, thus effectively avoiding the inaccuracy incurred by the split inference stages. The key innovation of NeuralNJ lies in its learnable neighbor joining mechanism, which iteratively joins neighbors g

SUBMITTER: Zhang X 

PROVIDER: S-EPMC12622301 | biostudies-literature | 2025 Oct

REPOSITORIES: biostudies-literature