Individual skill
tooluniverse-multi-omics-integration
Multi-omics integration — orchestrate per-layer analysis (transcriptomics, proteomics, epigenomics, genomics, metabolomics) then perform cross-omics correlation, multi-omics clustering, and pathway-level integration. Use for integrative systems-biology analysis, multi-modal disease characterization, and cross-omics biomarker discovery.
plugins/tooluniverse/skills/tooluniverse-multi-omics-integration/SKILL.md
Source commit 5598a9fc97e32964fe9b703818e7d0747142f179
What was checked
- Matches the observed repository HEAD
- Yes
- Scanner rules are current
- No
- Repository scan complete
- No
- Skill scan complete
- No
- Observed behavior
- Not checked yet
- Last checked
- Nov 5, 2026
These are observations at the recorded commit, not a guarantee of safety. Review the source before running it.
Install this skill
Choose an agent in your Stack or copy a command below. Commands fetch the pinned commit and copy only this skill directory. Existing destinations are refused. Copying a command does not install anything.
An install command is unavailable: current rules, complete repository and skill scans, an eligible behavior level and a permitted license are required.
Repository context
- Repository stars (not skill ratings)
- 1,779
- Repository last updated
- Nov 8, 2026
- License
- Apache-2.0
Observed agent integration: No specific integration evidence. Standard SKILL.md installation does not imply verified compatibility.
- agents Repository topic
- reasoning-agent Repository topic
- reasoning-language-models Repository topic
- tool-use Repository topic
- ai-agents Repository topic
- ai-scientists Repository topic
- automated-science Repository topic
- co-pilot Repository topic
- co-scientist Repository topic
- ai-for-science Repository topic
- engineering Derived category
Files and excerpt
File metadata and permitted, redacted excerpts come from the recorded scan. Source links are pinned to that commit.
Browse files
SKILL.mdcore · 7,605 bytesSKILL.mdcore · 7,605 bytesSKILL.mdcore · 7,605 bytesSKILL.mdcore · 7,605 bytesphase_details.mddoc · 9,053 bytes
Read excerpt
# Multi-Omics Integration
Coordinate and integrate multiple omics datasets for comprehensive systems biology analysis. Orchestrates specialized ToolUniverse skills to perform cross-omics correlation, multi-omics clustering, pathway-level integration, and unified interpretation.
---
## Domain Reasoning
Multi-omics integration asks whether different molecular layers tell a concordant story. If a gene is upregulated in RNA-seq AND its protein is elevated in proteomics, that is concordant evidence of true biological change. Discordance — high mRNA but low protein, or elevated protein without matching mRNA — may indicate post-transcriptional regulation (miRNA silencing, protein degradation, translational control) and is itself a meaningful finding worth reporting. Not every discordance is noise; some are the most interesting biology.
## LOOK UP DON'T GUESS
- Expected RNA-protein correlation ranges: compute Spearman r from the actual data; the typical range (0.4-0.6) is a guide, not a guarantee.
- Pathway enrichment results: run `ReactomeAnalysis_pathway_enrichment` or gseapy on the actual gene lists; never list enriched pathways from memory.