Training materials
Licence: Creative Commons Attribution 4.0 International
and Contributors: Anatole Chessel or Anika Erxleben or Cristóbal Gallardo or Delphine Lariviere or Dr. Simon Andrews or John Davis or Marius van den Beek or Pavankumar Videm
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hands-on tutorial
Filter, plot, and explore single cell RNA-seq data with Seurat
• beginner10x Single Cell paper-replication -
hands-on tutorial
Generating a single cell matrix using Alevin and combining datasets (bash + R)
• beginner10x Single Cell jupyter-notebook paper-replication -
hands-on tutorial
Inferring single cell trajectories with Scanpy
• beginner10x Single Cell paper-replication -
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
Pre-processing of 10X Single-Cell ATAC-seq Datasets
• beginner10x Single Cell epigenetics -
hands-on tutorial
Use Apptainer containers for running Galaxy jobs
• beginnerGalaxy Server administration ansible git-gat jobs -
hands-on tutorial
Inferring single cell trajectories with Monocle3 (R)
• beginner10x R Single Cell jupyter-notebook paper-replication rmarkdown-notebook -
hands-on tutorial
Python - Type annotations
•• intermediateSoftware engineering Foundations of Data Science jupyter-notebook -
hands-on tutorial
Exome sequencing data analysis for diagnosing a genetic disease
• beginnerGenetic variation Variant Analysis -
hands-on tutorial
Visualisation with Circos
• beginnerVisualisation