BugMat and FindNeighbour: command line and server applications for investigating bacterial relatedness.

ABSTRACT:

Background

Large scale bacterial sequencing has made the determination of genetic relationships within large sequence collections of bacterial genomes derived from the same microbial species an increasingly common task. Solutions to the problem have application to public health (for example, in the detection of possible disease transmission), and as part of divide-and-conquer strategies selecting groups of similar isolates for computationally intensive methods of phylogenetic inference using (for example) maximal likelihood methods. However, the generation and maintenance of distance matrices is computationally intensive, and rapid methods of doing so are needed to allow translation of microbial genomics into public health actions.

Results

We developed, tested and deployed t

SUBMITTER: Mazariegos-Canellas O 

PROVIDER: S-EPMC5683244 | biostudies-literature | 2017 Nov

REPOSITORIES: biostudies-literature