Bioinformatics related FAQs and Tutorials

Single-Cell Analysis

Literature

Single-cell best practices

Toolkits

scrnaseq2 - The DcGC analysis pipeline for single-cell and spatial data

• scrnaseq2 (R, QMD)
• Written around Seurat v5
• Follows best practices recommendations and contains additional visualizations, tables and documentation of the various analysis steps

Seurat

• Seurat (R)
• Seurat - Tutorials

Alternatives to Seurat

• Scanpy (Python)
• Scater (R)

Spatial Analysis

Differential Gene Expression Analysis

Peak Calling Analysis