Chewie-NS
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Chewie-NS: Enabling the use of gene-by-gene typing methods through a public and centralized service

Overview

Chewie-NS is a Nomenclature Server that is based on the TypOn ontology and aims to provide a centralized service to download or update cg/wgMLST schemas, allowing the easy sharing of results, while ensuring the reproducibility and consistency of these steps. It has an integration with the previously proposed chewBBACA, a suite that allows the creation of gene-by-gene schemas and determination of allelic profiles from assembled draft genomes.

Chewie-NS is an easy way for users worldwide to download the necessary data defining the cg/wgMLST schemas, perform analyses locally with chewBBACA, and, if they so wish, to submit their novel results to the web service through a REST API to ensure that a common nomenclature is maintained.

Click here to see the Available Schemas

Tutorial

Please visit the Tutorial site at https://tutorial.chewbbaca.online/ or by clicking on the test tube icon on the sidebar! The Tutorial instructions will be available soon at Chewie-NS' Read The Docs.

Schema submission

If you wish to submit schemas to Chewie-NS you need to register first at the Register page.

Citation

If you use Chewie-NS, please cite:

Mamede, R., Vila-Cerqueira, P., Silva, M., Carriço, J. A., & Ramirez, M. (2020). Chewie Nomenclature Server (chewie-NS): a deployable nomenclature server for easy sharing of core and whole genome MLST schemas. Nucleic Acids Research.

Contacts

Chewie-NS is developed by the Molecular Microbiology and Infection Unit (UMMI) at the Instituto de Medicina Molecular João Lobo Antunes and Faculdade de Medicina of Universidade de Lisboa.

For any issues contact the development team at imm-bioinfo@medicina.ulisboa.pt or open an issue at the Chewie-NS Github repository.

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