Gene Panel Selection Workflow
OfficialEnd-to-end gene panel design for scRNA-seq.
Data & Analytics#benchmarking#spatial-transcriptomics#scRNA-seq#gene-panel#panel-design#marker-selection#ARI
Authoraristoteleo
Version1.0.0
Installs0
System Documentation
What problem does it solve?
End-to-end workflow to design, evaluate, and complete gene panels for single-cell assays, reducing time to biologically meaningful panels and ensuring robust performance.
Core Features & Use Cases
- End-to-end workflow from dataset understanding to benchmarking, including downsampling, marker selection, seed-panel discovery, and completion.
- Supports multiple marker-selection methods (HVG/DE, Random Forest, scGeneFit, SpaPROS) with ARI-based evaluation.
- Enables thorough biological curation by exhaustive literature-based marker lookup and category-balanced panel assembly.
Quick Start
Provide your dataset and target panel size, then run the workflow to generate a seed panel and perform biological completion.
Dependency Matrix
Required Modules
scanpypandasnumpyspaprosscikit-learnscGeneFitanndata
Components
scripts
💻 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: Gene Panel Selection Workflow Download link: https://github.com/aristoteleo/PantheonOS/archive/main.zip#gene-panel-selection-workflow Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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