ReddRadar
Agent skill
cellranger-processor
Cell Ranger skill for 10X Genomics single-cell data processing
Install this agent skill to your Project
npx add-skill https://github.com/a5c-ai/babysitter/tree/main/library/specializations/domains/science/bioinformatics/skills/cellranger-processor
Metadata
Additional technical details for this skill
- tags
-
transcriptomics single-cell 10x-genomics demultiplexing
- version
- 1.0
- category
- bioinformatics
SKILL.md
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)
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