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Viromics tutorial for the 9th EBAME workshop.
In this tutorial we will mine for phage sequences in a metagenome assembly.
Checking their quality, we can then select some of the predictions as candidate "Viral [OTUs](https://en.wikipedia.org/ wiki/Operational_taxonomic_unit)" (vOTUs).
When you have multiple samples, you can back-map the reads to the vOTUs to estimate their abundance in the original samples.
Using Anvi'o, we can generate a visualization focussed on the vOTUs, so building a CONTIGS.db database only based on the candidate vOTUs.
There are also some optional sections, covering how to automate and executing workflows written in NextFlow.
Tutorial developed by:
- Evelien Adriaenssens
- Andrea Telatin
- Alise Ponsero
- Ryan Cook
- Claire Elek
- Hannah Pye
from the Quadram Institute Bioscience, Norwich, UK.