14 docs tagged with "phylogeny"

Inference of recombination in bacterial genomes.

Detect and mask recombination events in bacterial phylogenies.

Taxonomic classification with the Genome Taxonomy Database.

Taxonomic classification of bacterial and archaeal genomes using GTDB-Tk.

Detect recombination and construct a recombination-free phylogeny.

Detect and filter recombination regions in bacterial alignments.

Efficient phylogenomic inference using Maximum Likelihood.

Construct maximum likelihood phylogenetic trees from alignments.

Rapid alignment-free phylogenomic tree construction.

Create phylogenetic trees using Mash distances.

Perform pangenome analysis with optional core-genome phylogeny.

Core-SNP alignment from Snippy outputs.

Create a SNP distance matrix from a multiple sequence alignment.

Calculate pairwise SNP distances from sequence alignments.