index.md

Tutorials

Check out the following tutorials which take you through common single-cell multimodal analysis steps with Panpipes:

• Ingest workflow
• Preprocessing workflow
• Integration workflow
• Clustering workflow
• Reference mapping workflow
• Visualization workflow

Spatial analysis:

• Ingesting 10X Visium data
• Ingesting MERFISH data
• Preprocessing spatial data
• Deconvoluting spatial data

Additional tutorials:

• Ingesting multiome from cellranger outputs
• Ingesting CITEseq + V(D)J from cellranger multi outputs
• Ingesting mouse data