cellfate-pseudotime-gene-analysis
CommunityDiscover fate-driving genes along cell trajectories.
Data & Analytics#bioinformatics#pseudotime#single-cell#gene expression#trajectory inference#cell fate
AuthorStarlitnightly
Version1.0.0
Installs0
System Documentation
What problem does it solve?
This Skill identifies genes that are crucial for driving cell fate decisions during developmental processes, by analyzing gene expression changes along inferred cell trajectories.
Core Features & Use Cases
- Pseudotime-Associated Gene Discovery: Uses Adaptive Threshold Regression (ATR) to find genes whose expression significantly correlates with pseudotime.
- Lineage-Specific Fate Gene Scoring: Identifies genes that specifically drive the progression of particular cell lineages using density estimation and variability scoring.
- Use Case: After inferring cell differentiation trajectories in a single-cell RNA-seq dataset, use this Skill to pinpoint the key genes responsible for transitioning cells from a progenitor state to specific terminal fates.
Quick Start
Run CellFateGenie to identify genes driving cell fate decisions along the pseudotime trajectory in your annotated AnnData object.
Dependency Matrix
Required Modules
mellon
Components
scriptsreferences
💻 Claude Code Installation
Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.
Please help me install this Skill: Name: cellfate-pseudotime-gene-analysis Download link: https://github.com/Starlitnightly/omicclaw/archive/main.zip#cellfate-pseudotime-gene-analysis Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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