Benchmarking

Benchmarking of tools for sequence analysis

As part of the ENGAGE project, benchmarking of tools for sequence analysis is performed. The benchmarking reports below have been produced and are available for download.

ENGAGE Benchmarking of de novo assembly tools: SPAdes 3.9 vs Velvet 1.2

ENGAGE Benchmarking of genotypic Salmonella serotype prediction (general)

ENGAGE Benchmarking of genotypic Salmonella serotype prediction complying to the Draft International Standard ISO 16140-6 (ISO/DIS 16140-6:2017 Microbiology of the food chain – Method validation – Part 6: Protocol for the validation of alternative (proprietary) methods for microbiological confirmation and typing procedures)

ENGAGE Benchmarking of genotypic detection of antimicrobial resistance (AMR) genes

ENGAGE Benchmarking for Salmonella Enteritidis phylogeny

ENGAGE Benchmarking for Campylobacter coli phylogeny

 

 

 

Updated by Jeffrey Edward Skiby on 15 June 2018
Updated by Jeffrey Edward Skiby on 15 June 2018

ENGAGE

ENGAGE - Establishing Next Generation Sequencing Ability for Genomic Analysis in Europe.

 

ENGAGE envisions to establish collaboration between the public health, food and veterinary sectors across the European Union (EU). The aim is to build and enhance the use of real-time whole genome sequencing (WGS) and analysis in food safety and public health protection. ENGAGE will exploit established collaborations to boost scientific cooperation among the leading food, veterinary and public health institutes across Europe.

 

The ENGAGE project has received funding from European Food Safety Authority (EFSA), grant agreement GP/EFSA/AFSCO/2015/01 (New approaches in identifying and characterizing microbiological and chemical hazards).

 

Disclaimer: The website has been produced and adopted by the ENGAGE consortium members. The European Food Safety Authority reserves its rights, view and position as regards the issues addressed and the conclusions reached in the present website, without prejudice to the rights of the ENGAGE consortium members.

http://www.engage-europe.eu/resources/benchmarking
11 DECEMBER 2018