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multimodal-anndata-mudata

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Bridge Seurat multimodal data into Python MuData.

Education & Research#multimodal#anndata#seurat#multiomics#mudata#chromatin-assay#seurat-to-python
Authortony-zhelonkin
Version1.0.0
Installs0

System Documentation

What problem does it solve?

Converts multi-assay R Seurat objects to Python AnnData/MuData and explains MuData container semantics for paired, unpaired, and partially paired multi-omics. Use when moving RNA+ATAC (or CITE-seq) data from Seurat/Signac into the scverse ecosystem, handling ChromatinAssay extraction, or setting up obs_names for the right pairing semantics. For R-only analysis see seurat-multimodal-analysis; for end-to-end Python analysis see python-multimodal-10x.

Core Features & Use Cases

  • Converts Seurat multimodal objects to MuData containers in Python (RNA+ATAC, CITE-seq, etc.)
  • Supports paired, unpaired, and partially paired data, with correct obs_names mapping
  • Requires or complements existing skills: anndatar-seurat-scanpy-conversion, python-multimodal-10x, seurat-multimodal-analysis

Quick Start

Export Seurat objects to AnnData-compatible formats and assemble a MuData container in Python to enable paired, unpaired, or partially paired multi-omics analysis.

Dependency Matrix

Required Modules

None required

Components

Standard package

💻 Claude Code Installation

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Please help me install this Skill:
Name: multimodal-anndata-mudata
Download link: https://github.com/tony-zhelonkin/SciAgent-toolkit/archive/main.zip#multimodal-anndata-mudata

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