DecentTree: scalable Neighbour-Joining for the genomic era.

ABSTRACT:

Motivation

Neighbour-Joining is one of the most widely used distance-based phylogenetic inference methods. However, current implementations do not scale well for datasets with more than 10 000 sequences. Given the increasing pace of generating new sequence data, particularly in outbreaks of emerging diseases, and the already enormous existing databases of sequence data for which Neighbour-Joining is a useful approach, new implementations of existing methods are warranted.

Results

Here, we present DecentTree, which provides highly optimized and parallel implementations of Neighbour-Joining and several of its variants. DecentTree is designed as a stand-alone application and a header-only library easily integrated with other phylogenetic software (e.g. it is integral in the pop

SUBMITTER: Wang W 

PROVIDER: S-EPMC10491953 | biostudies-literature | 2023 Sep

REPOSITORIES: biostudies-literature