Training materials
Difficulty level: Intermediate
and Scientific topics: Data governance or Gene and protein families or Gene expression and microarray or Genetic variation or RNA-Seq or Software engineering
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Presentation
FAIRtracks and Omnipy – FAIRtracks interoperability story
•• intermediateData submission, annotation, and curation Data identity and mapping Data quality management Data governance Workflows Data handling -
Learning pathway
Version control with Git
•• intermediateSoftware engineering Open science Version control -
hands-on tutorial
Avian influenza viral strain analysis from gene segment sequencing data
•• intermediateGenetic variation Variant Analysis one-health virology -
hands-on tutorial
Python - Coding Style
•• intermediateSoftware engineering Foundations of Data Science jupyter-notebook -
hands-on tutorial
Virtual Environments For Software Development
•• intermediateSoftware engineering Foundations of Data Science jupyter-notebook -
hands-on tutorial
Conda Environments For Software Development
•• intermediateSoftware engineering Foundations of Data Science conda jupyter-notebook -
hands-on tutorial
Python - Type annotations
•• intermediateSoftware engineering Foundations of Data Science jupyter-notebook -
hands-on tutorial
Python - Testing
•• intermediateSoftware engineering Foundations of Data Science jupyter-notebook -
hands-on tutorial
Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data
•• intermediateGenetic variation Variant Analysis covid19 one-health virology -
hands-on tutorial
M. tuberculosis Variant Analysis
•• intermediateGenetic variation Genomics Microbiology Sequence assembly Public health and epidemiology Infectious disease Variant Analysis microgalaxy one-health prokaryote tuberculosis