Journal
GENOMICS PROTEOMICS & BIOINFORMATICS
Volume 19, Issue 4, Pages 662-667Publisher
ELSEVIER
DOI: 10.1016/j.gpb.2021.03.006
Keywords
CVTree; Composition vector; Alignment-free; Dissimilarity matrix; Phylogeny; Taxonomy
Categories
Ask authors/readers for more resources
CVTree is an alignment-free algorithm used to infer phylogenetic relationships from genome sequences. Its standalone software provides an extensible parallel workflow and new alignment-free methods for studying phylogeny and taxonomy. By examining the phylogeny and taxonomy of 13,903 prokaryotes, it has been shown to be an efficient and effective tool for studying genome sequences.
Composition Vector Tree (CVTree) is an alignment-free algorithm to infer phylogenetic relationships from genome sequences. It has been successfully applied to study phylogeny and taxonomy of viruses, prokaryotes, and fungi based on the whole genomes, as well as chloroplast genomes, mitochondrial genomes, and metagenomes. Here we presented the standalone software for the CVTree algorithm. In the software, an extensible parallel workflow for the CVTree algorithm was designed. Based on the workflow, new alignment-free methods were also implemented. And by examining the phylogeny and taxonomy of 13,903 prokaryotes based on 16S rRNA sequences, we showed that CVTree software is an efficient and effective tool for studying phylogeny and taxonomy based on genome sequences. The code of CVTree software can be available at https://github.com/ghzuo/cvtree.
Authors
I am an author on this paper
Click your name to claim this paper and add it to your profile.
Reviews
Recommended
No Data Available