Genomic Epidemiology of resistant Plasmodium Falciparum training was designed with the aim to uncover the genomic signatures due to various selection pressures to be identified (host immune system? background genetics? epidemiological facies? or other).To understand the spread over the country of populations of parasites carrying any malaria drug resistant-conferring markers (the withdrawn ones as well as the ones on official uset).
This Bioinformatics Fundamentals virtual workshop used the Carpentries team to provide training on Linux, Shell Scripts, and other foundational skills. The main focus for this virtual training was to introduce participants to the fundamental tools used to interact with the computer without a graphical user interface, some of which will allow users to perform more advanced tasks, such as automate repetitive tasks, and combine smaller tasks into larger, more complex 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.
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.
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.
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.