APPLES: Scalable Distance-based Phylogenetic Placement with or without Alignments

Metin Balaban
Metin Balaban
Shahab Sarmashghi
Shahab Sarmashghi

SYSTEMATIC BIOLOGY, pp. 566-578, 2020.

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Abstract:

Placing a new species on an existing phylogeny has increasing relevance to several applications. Placement can be used to update phylogenies in a scalable fashion and can help identify unknown query samples using (meta-)barcoding, skimming, or metagenomic data. Maximum likelihood (ML) methods of phylogenetic placement exist, but these met...More

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