ARTICnetwork & CLIMB-BIG-DATA present a panel discussion on overcoming barriers to SARS-CoV-2 data analysis with Nick Loman and Will Rowe from the University of Birmingham, Áine O'Toole from the University of Edinburgh, Andrew Page from the Quadram Institute and Anna Price from MRC CLIMB and Cardiff University. This was part of a workshop on COVID-19 data analysis.

Topics covered:
Collecting sample metadata
intrapatient variability
Building bridges with policy makers to start sequencing
Data sharing
Improving bioinformatics skills
Pipeline and software validation
Bioinformatics reproducibility and quality

Papers:
The PHA4GE SARS-CoV-2 Contextual Data Specification for Open Genomic Epidemiology https://www.preprints.org/manuscript/202008.0220/v1
MAJORA: Continuous integration supporting decentralised sequencing for SARS-CoV-2 genomic surveillance https://www.biorxiv.org/content/10.1101/2020.10.06.328328v1
Genomic sequencing of SARS-CoV-2: a guide to implementation for maximum impact on public health https://www.who.int/publications/i/item/9789240018440

Resources:
https://www.climb.ac.uk/artic-and-climb-big-data-joint-workshop/
https://github.com/SamStudio8/majora
https://soundcloud.com/microbinfie/majora
https://github.com/pha4ge/SARS-CoV-2-Contextual-Data-Specification
https://pha4ge.org/

Software:
https://github.com/cov-lineages/pangolin
https://github.com/artic-network/civet
https://github.com/COG-UK/grapevine
https://github.com/cov-lineages/pangoLEARN

42 Overcoming barriers to SARS-CoV-2 data analysis

Microbial Bioinformatics is a rapidly changing field marrying computer science and microbiology. Join us as we share some tips and tricks we’ve learnt over the years. If you’re student just getting to grips to the field, or someone who just wants to keep tabs on the latest and greatest - this podcast is for you. 

The hosts are Dr. Lee Katz from the Centres for Disease Control and Prevention (US), Dr. Nabil-Fareed Alikhan from the University of Oxford (UK), and Prof. Andrew Page from Theiagen Genomics (UK) and bring together years of experience in microbial bioinformatics.

The opinions expressed here are our own and do not necessarily reflect the views of Centres for Disease Control and Prevention, University of Oxford or Theiagen Genomics.

Intro music : Werq - Kevin MacLeod (incompetech.com)
Licensed under Creative Commons: By Attribution 3.0 License
http://creativecommons.org/licenses/by/3.0/

Outro music : Scheming Weasel (faster version) - Kevin MacLeod (incompetech.com)
Licensed under Creative Commons: By Attribution 3.0 License
http://creativecommons.org/licenses/by/3.0/

Question and comments? microbinfie@gmail.com

42 Overcoming barriers to SARS-CoV-2 data analysis

Micro Binfie Podcast