bioinformatics-init-analysis
CommunityAutomate initial single-cell data analysis.
Data & Analytics#bioinformatics#pipeline#data-analysis#single-cell#scRNA-seq#report-generation#cytof
Authorxiaoyu-ops
Version1.0.0
Installs0
System Documentation
What problem does it solve?
Automates the end-to-end initial data analysis workflow for high-dimensional single-cell biology data, reducing manual setup and speeding up insights.
Core Features & Use Cases
- 7-step pipeline: Load, QC, Normalize, Dimensionality reduction (PCA/UMAP), Clustering, Marker Analysis, and Report generation.
- Auto-detection: Automatically identifies data type (CyTOF, scRNA-seq, flow cytometry) and applies appropriate processing.
- Modular workflow: Use the full pipeline or import individual steps for custom analyses.
- Clinical/technical reporting: Generates HTML reports with plain-language interpretations and visualizations.
- Scalability: Subsampling support and parallelizable stages for large datasets.
Quick Start
Run the 7-step pipeline on your dataset using the provided entry point.
Dependency Matrix
Required Modules
numpypandasscanpyanndatamatplotlibseabornscikit-learn
Components
scriptsreferences
💻 Claude Code Installation
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Please help me install this Skill: Name: bioinformatics-init-analysis Download link: https://github.com/xiaoyu-ops/the_work_of_dedup/archive/main.zip#bioinformatics-init-analysis Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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