EMBL-EBI
CABANA Virtual Workshop: Innovative methods for viral detection and discovery in genomic and metagenomic data
Date: 8 - 12 November 2021
Emerging viruses can cause new diseases in humans and animals and proper epidemiological surveillance is essential to detect and characterize such viruses. Given the enormous impact of the COVID-19 pandemics, this course will cover the assembly of the SARS-CoV-2 genome from human patients, characterization of viral variants, and identification of variants of concern (VOCs). The course will also present some innovative methods that can improve the detection of evolutionarily remote viruses. Among other methods, the course will cover the construction of profile HMMs and their application to screening metagenomic datasets for both known and novel viruses.
Virtual machines:
All students will receive an account in a virtual machine (VM)
The VMs will be running Linux and all programs used throughout the course will be available to students
Access to the VMs will be granted throughout the entire duration of the course.
No programs are needed on the local computer, except Zoom
Keywords: MGnify , DNA & RNA (dna-rna)
Venue: USP / FIOCRUZ Amazonas Rua Terezina, 476 - Adrianópolis
Region: Manaus
Country: Brazil
Postcode: 69057-070
Target audience: This course is intended for graduate students, postdocs and young researchers working in the fields of metagenomics and viral discovery in the CABANA grand challenge areas of communicable diseases, protection of biodiversity, and/or sustainable crop production. Applicants must be employed within Latin America only. Additional we cannot accept applications from Chile or Uruguay due to funding restrictions. Prerequisites Please note this course will be taught in English, however the trainers are fluent in either Spanish/Portuguese, and can offer language support where feasible. Priority will also be given to those who have not attended a CABANA event yet. Students should be familiar with using the Linux command line. As the course will be held remotely, all students must have Zoom previously installed on their computers. Also, as classes will be held synchronously, a good Internet connection is mandatory. A knowledge of virology, especially from previous research experience, is also desirable. Scientists from underrepresented ethnic and gender groups are especially encouraged to apply for this workshop, for example women and those with Black and/or Indigenous heritage.
Capacity: 30
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