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Cellranger processor

Skill a5c-ai/babysitter/library/specializations/domains/science/bioinformatics/skills/cellranger-processor

Cell Ranger skill for 10X Genomics single-cell data processingFrom its SKILL.md

Install
npx -y skills add a5c-ai/babysitter --skill cellranger-processor

Assembled from the repository path, not quoted from the project. Check it against their README if it does not work.

SKILL.md

1.4 KB, 163 tokens by cl100k_base, as published. Nobody here has run it

CellRanger Processor Skill

Purpose

Provide Cell Ranger capabilities for 10X Genomics single-cell data processing including demultiplexing and alignment.

Capabilities

  • BCL to FASTQ conversion
  • Cell barcode demultiplexing
  • UMI counting
  • Feature barcode processing
  • Aggregate sample analysis
  • Loupe Browser file generation

Usage Guidelines

  • Configure sample sheets accurately
  • Validate cell counts against expectations
  • Review QC metrics from web summary
  • Aggregate samples for combined analysis
  • Generate Loupe files for visualization
  • Document reference versions

Dependencies

  • Cell Ranger
  • STARsolo

Process Integration

  • Single-Cell RNA-seq Analysis (scrnaseq-analysis)
  • Spatial Transcriptomics Analysis (spatial-transcriptomics)

What ships with it

Read from the repository

Just SKILL.md. No reference files, no scripts.

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