ProkEvo: an automated, reproducible, and scalable framework for high-throughput bacterial population genomics analyses.

ABSTRACT: Whole Genome Sequence (WGS) data from bacterial species is used for a variety of applications ranging from basic microbiological research, diagnostics, and epidemiological surveillance. The availability of WGS data from hundreds of thousands of individual isolates of individual microbial species poses a tremendous opportunity for discovery and hypothesis-generating research into ecology and evolution of these microorganisms. Flexibility, scalability, and user-friendliness of existing pipelines for population-scale inquiry, however, limit applications of systematic, population-scale approaches. Here, we present ProkEvo, an automated, scalable, reproducible, and open-source framework for bacterial population genomics analyses using WGS data. ProkEvo was specifically developed to achieve the

SUBMITTER: Pavlovikj N 

PROVIDER: S-EPMC8142932 | biostudies-literature | 2021

REPOSITORIES: biostudies-literature