Tutorials

Quality Control

In these tutorials we show the complete workflow to perform quality control and downstream analysis using a public dataset from 10X.

• Remove ambient RNA with CellBender
• Quality control of sc/snRNA-seq
• Integration of scRNA-seq
• Quality control of Visium

Visualisation and Usage Examples

In these tutorials we compile case examples for the visualisation and differential expression analysis of data.

• Differential gene expression analysis
  • Environment setup
  • DEA at the single-cell level
  • DEA at the pseudobulk level
  • DEA consensus
• Usage of functions
  • Environment setup
  • Dotplot
  • Heatmap
  • UMAP
  • Split embeddings
  • Changes in cell proportion
  • Expression of genes and continuous metadata
  • Correlation between condition