scanpy_plus documentation

scanpy_plus extends Scanpy with practical utilities for preprocessing, analysis, visualization, and AnnData I/O workflows.

User Guide

• Overview
• Installation
  • Prerequisites
  • Install from GitHub
  • Install for local development
  • Build docs locally
• Usage
  • Assumptions
  • Basic workflow
  • Common workflows
• Tutorials
  • Beginner tutorial: QC and first UMAP
  • Intermediate tutorial: SCVI pipeline
  • Intermediate tutorial: plotting and data export
• API reference
  • Module index
• Contributing

Indices and tables

• Index

• Module Index

• Search Page