Individual skill
single-cell-rna-qc
Performs quality control on single-cell RNA-seq data (.h5ad or .h5 files) using scverse best practices with MAD-based filtering and comprehensive visualizations. Use when users request QC analysis, filtering low-quality cells, assessing data quality, or following scverse/scanpy best practices for single-cell analysis.
plugins/knowledge-work-all/skills/single-cell-rna-qc/SKILL.md
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- Last checked
- Nov 11, 2026
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- Repository last updated
- Jul 20, 2026
- License
- MIT
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# Single-Cell RNA-seq Quality Control
Automated QC workflow for single-cell RNA-seq data following scverse best practices.
## When to Use This Skill
Use when users:
- Request quality control or QC on single-cell RNA-seq data
- Want to filter low-quality cells or assess data quality
- Need QC visualizations or metrics
- Ask to follow scverse/scanpy best practices
- Request MAD-based filtering or outlier detection
**Supported input formats:**
- `.h5ad` files (AnnData format from scanpy/Python workflows)