Training materials
Target audience: Students
and Contributors: David Bouyssié or Mallory Freeberg or Miguel Roncoroni or Pavankumar Videm or Stephen Taylor or The Gulbenkian Training Programme in Bioinformatics
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hands-on tutorial
Single-cell ATAC-seq standard processing with SnapATAC2
•• intermediate10x Single Cell epigenetics single-cell -
hands-on tutorial
Genome-wide alternative splicing analysis
••• advancedTranscriptomics alternative splicing isoform switching -
hands-on tutorial
Converting NCBI Data to the AnnData Format
• beginnerSingle Cell data import data management -
hands-on tutorial
Converting between common single cell data formats
• beginnerSingle Cell data import data management -
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
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