In this training course you will find theory and practice material for introducing yourself to wgs analysis for bacterial, including outbreak investigation. Here you will find the agenda.
The material includes slides with theory concepts and a bunch of practical exercises using nextflow and singularity, focusing on the interpretation of results.
- Talk 1 and 2: Massive sequencing of bacterial genomes. State-of-the-art. & Bacterial genomes sequencing. Applications.
- Talk 3: Linux environment review.
- Exercise 0 -- Download pdf
- Exercise 1 -- Download pdf
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Talk 4: The computing revolution in Biosciences. Nextflow and Singularity introduction.
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Talk 6: Bacterial genomes assembly
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Talk 10: Gene-by-gene WGS analysis
- Talk 11: Sequence annotation
- Exercise 6 -- Download pdf