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Guide reanalysis of GEO datasets with standard bioinformatics pipelines.
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Based on SOC occupation classification
Fetch and analyze AlphaFold-predicted protein structures from the AlphaFold DB or EBI.
Autonomous experiment loop that tries ideas, measures results, keeps what works, and discards what doesn't. Use when the user asks to optimize a metric, run an experiment loop, improve performance iteratively, or automate benchmarking.
Search, read, and query research papers via the `alpha` CLI (bioRxiv-backed). Use when the user asks about academic papers, wants to find research on a topic, needs to read a specific paper, ask questions about a paper, inspect a paper's code repository, or manage paper annotations.
Evaluate biomarker performance with ROC analysis, AUC, sensitivity, and specificity.
Monitor bioRxiv and medRxiv preprints for a topic, author, or keyword. Use for staying current with emerging biomedical research before peer review.
Search and summarize clinical trials from ClinicalTrials.gov and EU CTR. Use for drug development, competitive intelligence, and evidence synthesis.
| name | geo-reanalysis |
| description | Guide reanalysis of GEO datasets with standard bioinformatics pipelines. |
Reanalyze public GEO datasets for validation or hypothesis testing.
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QC
Analysis
Validation
Save reanalysis log to reanalyses/geo-<slug>.md with:
