Training materials
Difficulty level: Beginner
and Contributors: Andrea Argentini or Anne Pajon or Dr. Simon Tomlinson or Gildas Le Corguillé or John "Scooter" Morris or Lounès Chikhi or Patricia Palagi or Pavankumar Videm or Prof. Tom Freeman or bioinformatics.ca
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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
Inferring single cell trajectories with Monocle3 (R)
• beginner10x R Single Cell jupyter-notebook paper-replication rmarkdown-notebook -
hands-on tutorial
RNA-RNA interactome data analysis
• beginnerTranscriptomics -
hands-on tutorial
De novo transcriptome assembly, annotation, and differential expression analysis
• beginnerTranscriptomics -
hands-on tutorial
Analysis of plant scRNA-Seq Data with Scanpy
• beginnerTranscriptomics Single Cell paper-replication plants -
hands-on tutorial
Small Non-coding RNA Clustering using BlockClust
• beginnerTranscriptomics
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