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integration-bbknn

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Balance slices, unify clustering with BBKNN.

Data & Analytics#batch-correction#umap#leiden#bbknn#slice-integration#joint-clustering
Authorchenyhvvvv
Version1.0.0
Installs0

System Documentation

What problem does it solve?

BBKNN fixes batch effects across multiple slices by adjusting the neighbor graph, enabling joint clustering and visualization without altering the expression matrix.

Core Features & Use Cases

  • BBKNN-based batch correction across slices
  • Generates joint UMAP embedding and Leiden clusters
  • Lightweight and fast integration suitable for multi-slice studies

Quick Start

Load at least two slices in your session and run the BBKNN integration workflow to produce a batch-balanced neighbor graph and joint clustering.

Dependency Matrix

Required Modules

None required

Components

Standard package

💻 Claude Code Installation

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Please help me install this Skill:
Name: integration-bbknn
Download link: https://github.com/chenyhvvvv/STAT-agent/archive/main.zip#integration-bbknn

Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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