PT  - JOURNAL ARTICLE
AU  - Timothy Dallman
AU  - Philip Ashton
AU  - Ulf Schafer
AU  - Aleksey Jironkin
AU  - Anais Painset
AU  - Sharif Shaaban
AU  - Hassan Hartman
AU  - Richard Myers
AU  - Anthony Underwood
AU  - Claire Jenkins
AU  - Kathie Grant
TI  - SnapperDB: A database solution for routine sequencing analysis of bacterial isolates
AID  - 10.1101/189118
DP  - 2017 Jan 01
TA  - bioRxiv
PG  - 189118
4099  - http://biorxiv.org/content/early/2017/09/15/189118.short
4100  - http://biorxiv.org/content/early/2017/09/15/189118.full
AB  - Real-time surveillance of infectious disease using whole genome sequencing data poses challenges in both result generation and communication. SnapperDB represents a set of tools to store bacterial variant data and facilitate reproducible and scalable analysis of bacterial populations. We also introduce the ‘SNP address’ nomenclature to describe the relationship between isolates in a population to the single nucleotide resolution.Summary We announce the release of SnapperDB v1.0 a program for scalable routine SNP analysis and storage of microbial populations.Availability SnapperDB is implemented as a python application under the open source BSD license. All code and user guides are available at https://github.com/phe-bioinformatics/snapperdb.Contact tim.dallman{at}phe.gov.ukSupplementary information Supplementary data are available at Bioinformatics online.