Training materials
Contributors: Anton Nekrutenko or Anup Kumar or Gildas Le Corguillé or Janick Mathys or Jason Williams or Saskia Hiltemann or Simon Bray or Youri Hoogstrate
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hands-on tutorial
Filter, plot, and explore single cell RNA-seq data with Seurat (R)
• beginner10x R Single Cell jupyter-notebook paper-replication rmarkdown-notebook -
hands-on tutorial
Data visualisation Olympics - Visualization in R
• beginnerSoftware engineering Foundations of Data Science R cyoa jupyter-notebook rmarkdown-notebook -
hands-on tutorial
Identification of AMR genes in an assembled bacterial genome
• beginnerWhole genome sequencing Public health and epidemiology Genomics Microbiology Sequence analysis Infectious disease Antimicrobial Resistance Genome Annotation amr gmod illumina jbrowse1 microgalaxy one-health -
hands-on tutorial
RNA-seq Alignment with STAR
• beginnerTranscriptomics -
hands-on tutorial
Explore Protein Structures with ChimeraX
• beginnerProtein structure analysis Sequence analysis Structure visualisation ChimeraX Protein Structure analysis -
hands-on tutorial
Deploying a Beacon v1 in Galaxy
• beginnerGalaxy Server administration beacon ga4gh git-gat -
hands-on tutorial
Comparative gene analysis in unannotated genomes
• beginnerGenomics Gene and protein families Sequence analysis Phylogeny Genome Annotation annotation cookbook eukaryote evolution microgalaxy prokaryote vgp -
hands-on tutorial
Trio Analysis using Synthetic Datasets from RD-Connect GPAP
• beginnerGenetic variation Variant Analysis cyoa -
hands-on tutorial
Calling variants in non-diploid systems
• beginnerGenetic variation Genomics Sequence assembly DNA polymorphism Microbiology Sequence analysis Variant Analysis microgalaxy prokaryote -
hands-on tutorial
Calling very rare variants
• beginnerGenetic variation Variant Analysis