progeny-pathway-activity
CommunityInfer signaling pathway activity from DE results.
Authortony-zhelonkin
Version1.0.0
Installs0
System Documentation
What problem does it solve?
Infers signaling pathway activities from DE results using PROGENy footprints and DecoupleR MLM to provide a concise, pathway-centric readout.
Core Features & Use Cases
- 14-pathway activity inference: computes activity scores for the 14 PROGENy pathways using a multivariate linear model.
- DE-driven input compatibility: accepts DE results with t-statistics (genes x contrasts) for downstream pathway analytics.
- Master-table integration: exports a standardized master table with PROGENY_ prefix for downstream visualization and comparison.
- Complementary analysis: pairs with GSEA results to provide orthogonal pathway interpretation.
Quick Start
Run the PROGENy analysis on your DE results to obtain pathway activity scores for all 14 pathways and export the master activity table.
Dependency Matrix
Required Modules
None requiredComponents
Standard package💻 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: progeny-pathway-activity Download link: https://github.com/tony-zhelonkin/SciAgent-toolkit/archive/main.zip#progeny-pathway-activity Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
Agent Skills Search Helper
Install a tiny helper to your Agent, search and equip skill from 471,000+ vetted skills library on demand.