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  • Advanced Training: Developing Workflows

    High-throughput laboratory machines generate large quantities of raw biological data. Processing the data to generate useful information involves using several tools and sometimes setting up complex bioinformatics analysis environments across heterogeneous computing devices. Bioinformatics workflows and workflow managers allow reproducibility and portability of analysis plans and optimization of available computing resources. The Advanced Training in Developing Workflows workshop was aimed at introducing, deploying Nextflow, a too which enables scalable and reproducible scientific workflows.

  • Virtual software carpentry training workshop

    The Carpentries virtual training workshop was a pre-course to our bioinformatics NGS course. The main focus for this virtual training was to introduce some powerful tools that would allow users to perform complex and powerful tasks, often with just a few keystrokes or lines of code. This helped participants to automate repetitive tasks, easily combine smaller tasks into larger and more powerful workflows.

  • SARS-CoV-2 Bioinformatics Training

    The SARS-CoV-2 Bioinformatics Training was a follow-up to our SARS-CoV-2 NGS training. The focus for the module was more advanced bioinformatics analysis, data curation and dissemination of findings.

  • SARS-CoV-2 NGS Training

    The aim of this program was to provide virtual training for personnel at African institutions involved in SARS-CoV-2 sequencing for surveillance. It was primarily aimed at staff preparing samples, doing the sequencing, and running basic data analysis. The content was divided into modules, some of which were independent, while others formed recommended prerequisites for the next module. The content provided theoretical knowledge on the steps required for the workflow from sample selection to analysis, to prepare participants for more practical laboratory training when this is feasible. Virtual sessions generally included videos or live online presentations followed by live Q&A sessions with trainers. Where relevant, participants completed practical exercises and submitted assignments.

  • SARS-CoV-2 NGS Training

    The aim of this program was to provide virtual training for personnel at African institutions involved in SARS-CoV-2 sequencing for surveillance. It was primarily aimed at staff preparing samples, doing the sequencing, and running basic data analysis. The content was divided into modules, some of which were independent, while others formed recommended prerequisites for the next module. The content provided theoretical knowledge on the steps required for the workflow from sample selection to analysis, to prepare participants for more practical laboratory training when this is feasible. Virtual sessions generally included videos or live online presentations followed by live Q&A sessions with trainers. Where relevant, participants completed practical exercises and submitted assignments.