ReddRadar
Agent skill
seurat-single-cell-analyzer
Seurat single-cell analysis skill for clustering, annotation, and trajectory analysis
Install this agent skill to your Project
npx add-skill https://github.com/a5c-ai/babysitter/tree/main/library/specializations/domains/science/bioinformatics/skills/seurat-single-cell-analyzer
Metadata
Additional technical details for this skill
- tags
-
transcriptomics single-cell clustering scrnaseq
- version
- 1.0
- category
- bioinformatics
SKILL.md
Seurat Single-Cell Analyzer Skill
Purpose
Enable Seurat single-cell analysis for clustering, annotation, and trajectory analysis of scRNA-seq data.
Capabilities
- Quality filtering and normalization
- Dimensionality reduction (PCA, UMAP)
- Graph-based clustering
- Marker gene identification
- Cell type annotation
- Integration across datasets
- Trajectory inference
Usage Guidelines
- Apply quality filters appropriate for experiment
- Normalize data before dimensionality reduction
- Select clustering resolution based on biology
- Identify markers for cluster annotation
- Integrate datasets to remove batch effects
- Document analysis parameters
Dependencies
- Seurat
- Scanpy
- CellRanger
Process Integration
- Single-Cell RNA-seq Analysis (scrnaseq-analysis)
- Spatial Transcriptomics Analysis (spatial-transcriptomics)
Recommended Agent Skills
Expand your agent's capabilities with these related and highly-rated skills.
a5c-ai/babysitter
gsd-tools
Central utility skill for GSD operations. Provides config parsing, slug generation, timestamps, path operations, and orchestrates calls to other specialized skills. Acts as the unified entry point that the original gsd-tools.cjs provided via its lib/ modules (commands, config, core, init).
a5c-ai/babysitter
model-profile-resolution
Resolve model profile (quality/balanced/budget) at orchestration start and map agents to specific models. Enables cost/quality tradeoffs by selecting appropriate AI models for each agent role.
a5c-ai/babysitter
verification-suite
Plan structure validation, phase completeness checks, reference integrity verification, and artifact existence confirmation. Provides the structured verification layer ensuring GSD artifacts are well-formed and complete.
a5c-ai/babysitter
state-management
STATE.md reading, writing, and field-level updates. Provides cross-session state persistence via .planning/STATE.md with structured fields for current task, completed phases, blockers, decisions, and quick tasks.
a5c-ai/babysitter
git-integration
Git commit patterns, formats, and conventions for GSD methodology. Provides atomic commits per task, structured commit messages, planning file commits, branch management, and milestone tag operations.
a5c-ai/babysitter
frontmatter-parsing
YAML frontmatter parsing and manipulation for .planning/ documents. Provides read, write, update, query, and validation operations on frontmatter blocks in GSD markdown artifacts.
Didn't find tool you were looking for?