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© Research
Publication : F1000Research

On the transformation of MinHash-based uncorrected distances into proper evolutionary distances for phylogenetic inference

Scientific Fields
Diseases
Organisms
Applications
Technique

Published in F1000Research - 10 Nov 2020

Criscuolo A

Link to Pubmed [PMID] – 33335719

Link to DOI – 10.12688/f1000research.26930.1

F1000Res. 2020; 9:1309

Recently developed MinHash-based techniques were proven successful in quickly estimating the level of similarity between large nucleotide sequences. This article discusses their usage and limitations in practice to approximating uncorrected distances between genomes, and transforming these pairwise dissimilarities into proper evolutionary distances. It is notably shown that complex distance measures can be easily approximated using simple transformation formulae based on few parameters. MinHash-based techniques can therefore be very useful for implementing fast yet accurate alignment-free phylogenetic reconstruction procedures from large sets of genomes. This last point of view is assessed with a simulation study using a dedicated bioinformatics tool.

https://f1000research.com/articles/9-1309