Gene expression comparison skill. Differential expression analysis (DESeq2/edgeR/limma), multi-condition comparison, volcano plots, and enrichment analysis pipelines. Use when working with differential expression analysis (deseq2/edger/limma), multi-condition comparison, volcano plots.
Gene expression comparison skill. Differential expression analysis (DESeq2/edgeR/limma), multi-condition comparison, volcano plots, and enrichment analysis pipelines.
logs/process-log.jsonl.report.md: concise method, results, interpretation, and file inventory in the user's language.results/: structured outputs, metrics, model artifacts, or extracted findings.figures/: English-only charts, diagrams, or panels when visual output is needed.data/: processed or derived datasets when transformation occurs.External tools available via ToolUniverse MCP server. Falls back to Python
requests+ public REST APIs when MCP is unavailable.
| Source | Tool | Description |
|---|---|---|
| GEO | GEO_search_datasets | GEO API |
| GTEx | GTEx_get_expression | GTEx API |
report.md and logs/process-log.jsonl reference the generated artifacts.If any gate fails: identify the specific failing check, fix the issue, and re-validate before proceeding.
logs/process-log.jsonl is updated with execution trace