Open AccessPhylonium: fast estimation of evolutionary distances from large samples of similar genomes
Author(s) -
Fabian Klötzl,
Bernhard Haubold
Publication year - 2019
Publication title -
bioinformatics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.599
H-Index - 390
eISSN - 1367-4811
pISSN - 1367-4803
DOI - 10.1093/bioinformatics/btz903
Subject(s) - search engine indexing , ensembl , pairwise comparison , computer science , genome , documentation , sequence (biology) , ascii , software , data mining , computational biology , information retrieval , biology , genomics , artificial intelligence , genetics , programming language , gene
Tracking disease outbreaks by whole-genome sequencing leads to the collection of large samples of closely related sequences. Five years ago, we published a method to accurately compute all pairwise distances for such samples by indexing each sequence. Since indexing is slow, we now ask whether it is possible to achieve similar accuracy when indexing only a single sequence.
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