A project for miscellaneous testing of Workflow Hub.

Concerning the administration of the Workflow Hub.

Initial analysis of COVID-19 data using Galaxy, BioConda and public research infrastructures

A community effort to collect a curated set of analysis pipelines built using Nextflow.

MGnify (formerly known as EBImetagenomics) is a free resource for the assembly, analysis, archiving and browsing all types of microbiome derived sequence data.

Preprocessing of raw SARS-CoV-2 reads

The raw reads available so far are generated from bronchoalveolar lavage fluid (BALF) and are metagenomic in nature: they contain human reads, reads from potential bacterial co-infections as well as true COVID-19 reads.

Live Resources

| usegalaxy.org | usegalaxy.eu | usegalaxy.org.au | usegalaxy.be |

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Ignore

Evolutionary Analysis

Live Resources

usegalaxy.org

usegalaxy.eu

usegalaxy.org.au

usegalaxy.be

What's the point?

Wu et al. showed recombination between COVID-19 and bat coronaviruses located within the S-gene. We want to confirm this observation and provide a publicly accessible workflow for recombination detection.

In previous coronavirus outbreaks (SARS), retrospective analyses determined that adaptive substitutions might have occurred in the S-protein Zhang et al., e.g., related to ACE2 receptor

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Analysis of S-protein polymorphism

Live Resources

usegalaxy.org

usegalaxy.eu

usegalaxy.org.au

usegalaxy.be

What's the point?

In the previous portion of this study we found a non-synonymous polymorphism within the S-gene. In this section we are trying to interpret its possible effect.

Outline

Obtain coding sequences of S proteins from a diverse group of coronaviruses. Generate amino acid alignment to assess conservation of the polymorphic location.

Input

Downloaded CDS sequences of coronavirus

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nf-core workflows