In the internship program we have a two weeks curriculum to train the new incoming interns on the basic and general bioinformatics skills.
- Introduction to Collaborative tools (1 day)
- Introduction to genomics (3 days)
- Open Science (1 day)
- Introduction to Bioinformatics (1 week)
This is followed up by assignment of mini projects. The interns will also participate in other external trainings when available throughout their internship period.
The NGS course is offered jointly through H3Abionet and Wellcome genome campus virtually.
- Module 1: Intro to Unix/Linux
- Module 2: Introduction to NGS technologies
- Module 3: NGS data formats and QC
- Module 4: Alignment to Reference
- Module 5: Variant Calling - Human
- Module 6: Variant Calling - Pathogen
- Module 7: RNA-seq Human
- Module 8: RNA-seq Pathogen
- Module 9: Chip-seq
- Module 10: Genome Assembly
In the internship program we have a two weeks curriculum to train the new incoming interns on the basic and general bioinformatics skills.
- Introduction to Collaborative tools (1 day)
- Introduction to genomics (3 days)
- Open Science (1 day)
- Introduction to Bioinformatics (1 week)
This is followed up by assignment of mini projects. The interns will also participate in other external trainings when available throughout their internship period.
This module is designed to introduce learners on the topic of machine learning and its application in genomics
- Introduction to machine learning
- ML models (classification and regression)
- Building a model, evaluation and interpretation
- Application in genomics
This will develop a foundation for learners interested in deep learning.
This is a closed training designed for EANBiT scholars to improve their skillset and prepare them for their masters projects
- Version control and collaborative development (Git & Github & Slack etc.)
- Advanced Scripting
- Biological databases and API
- Contenarization and deployment (Docker and Singularity)
- Reproducibility and package management: workflow languages (Nextflow, Snakemake and Conda/Mamba)
- Specialised databases (VectorBase, EupathDB) and APIs
- Phylogenomics (Visualization and Annotation)
- Metagenomics (16S and Whole-genome shotgun sequencing)
- Machine Learning and modelling for genomic data
This module is ment for all researchers using the HPC in the institution and its meant to provide info about the hpc and its usage
- HPC architecture and partitions
- Logging in to the HPC
- Job Scheduler (Slurm)
- Modules available and how to request
- Parallel and Serialized Computing
- Scalability
When the call is out this section will be updated
In the internship program we have a two weeks curriculum to train the new incoming interns on the basic and general bioinformatics skills.
- Introduction to Collaborative tools (1 day)
- Introduction to genomics (3 days)
- Open Science (1 day)
- Introduction to Bioinformatics (1 week)
This is followed up by assignment of mini projects. The interns will also participate in other external trainings when available throughout their internship period.
- Functional programming
- Parallelization of tasks
- Object oriented programming