The ELIXIR-Greece Galaxy server including best practices tools and workflows for the analysis of SARS-CoV-2 data

The Galaxy Community and ELIXIR had organised a webinar available here series to demonstrate how open software and public research infrastructures can be used in analysing and publishing SARS-CoV2 data. Best practices for the analysis of this data were presented for Genomics, Proteomics, Evolution, and Cheminformatics. For the Greek life science community, we installed a local Galaxy instance at https://usegalaxy.elixir-greece.org that provides all tools used in these webinars as well as the standard tools of the reference Galaxy distribution. The instance operates on 3 servers with a total of 48 CPUs, 192 GB total memory and 3ΤΒ disk space, initially without quotas per user. Depending on user needs, additional resources (CPU, RAM, storage) and tools can be installed.

Within the Genomics/Variant Calling workbench, the initial analysis of the SARS-CoV-2 genome, as published on bioRxiv can be reproduced and adapted to the users data.

Comprehensive training material for different workflows in Galaxy is available at https://training.galaxyproject.org