VCF2Dis: an ultra-fast and efficient tool to calculate pairwise genetic distance and construct population phylogeny from VCF files.

ABSTRACT:

Background

Genetic distance metrics are crucial for understanding the evolutionary relationships and population structure of organisms. Progress in next-generation sequencing technology has given rise of genotyping data of thousands of individuals. The standard Variant Call Format (VCF) is widely used to store genomic variation information, but calculating genetic distance and constructing population phylogeny directly from large VCF files can be challenging. Moreover, the existing tools that implement such functions remain limited and have low performance in processing large-scale genotype data, especially in the area of memory efficiency.

Findings

To address these challenges, we introduce VCF2Dis, an ultra-fast and efficient tool that calculates pairwise genetic distance d

SUBMITTER: Xu L 

PROVIDER: S-EPMC11970368 | biostudies-literature | 2025 Jan

REPOSITORIES: biostudies-literature