The first 'Joint Training Course of the inter EURLs Working Group on NGS: Introduction to Bioinformatics for genomic data mining' was held at ISS (EURL (European Union Reference Laboratory)-VTEC) in Rome on June 14th - 15th 2022. Documents are available on the EURL-VTEC website: link to the website
The second 'Joint Training Course of the inter EURLs Working Group on NGS: Introduction to Bioinformatics for genomic data mining' took place at the location of the EURL-Salmonella in Bilthoven, The Netherlands, on 20 and 21 June 2023.
The program and the presentations can be found below:
- Program of the second joint training course
- Sequencing platforms & output data - Adrien Asséré (EURL-Listeria monocytogenes)
- Verification of the integrity of the raw data files, like md5sum - Angela van Hoek (EURL-Salmonella)
- Bioinformatics analysis of NGS data: approaches and opportunities - Joakim Skarin (EURL-Foodborne Viruses)
- Introduction on quality check and trimming - Valeria Michelacci (EURL-VTEC)
- Introduction on assembly and assembly statistics - Lauge Holm Sørensen (EURL-AMR)
- From BAM to BCF and beyond, making sense of aligned data - Paolo Vatta (EURL-Parasites)
- Amplicon-based sequencing of viral genomes - Luca De Sabato (ISS)
- Introduction to gene detection using BLAST approach - Marina Cavaiuolo (EURL-CPS)
- Parasites WGS: opportunities and challenges - Simone Cacciò (EURL-Parasites)
- Introduction to genome comparisons: gene-by-gene VS SNPs - Bo Segerman (EURL-Campylobacter)
- Information on activities of inter EURLs Working Group on NGS and guidance documents released - Valeria Michelacci (EURL-VTEC)